Citrus Sinensis ID: 002093

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------
Protein Sequence
MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVSDDHKSGRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Secondary Structure (PSIPRED)
ccccccHHHcccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccHHHHcccccccccccccHHHHHcccccccccccccHHcccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccHHHHHcccccccccccccccccccEEEEEcccccccHHHHHHHHHHHHHHcccccccccccEEEEEEEccccEEEEEEccHHHHHHHHHccccEEcccEEEEcccccHHHcccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHccccccEEEEccccccccEEEEEEEccccHHHHHHHHcccccccEEEEEEEccccccccccccccccccccccccccccccccEEEEEccccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEccccccccccccccccccccccccccEEEEEccccHHHHHHHHHccccccccccEEEccccHHHHHHccccccccccccccccccccccHHccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccHHHHHHHHHHHHcccccccEEEEEEccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccHHcccccccEccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccHcccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEccccccccccEEccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccHccccccHHccccccccHHHccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHHHHHcccccccccccEEEEEEEccccEEEEEEccHHHHHHHHHcccEEEcccEEEEEccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHccccEEEEEcccccccccEEEEEEEcHHHHHHHHHHHccccccccEEEEEEEccccccccccccccccccccccccccccccEEEEEEccccHHHHccccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccccEEccccHHHcccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccHHHcEEccccccccccccccHcHcccccccHHcccccccccccccccccccccccccccccEEcccEEEEEEccHHHHHHHHHHHccccccccEEEEEEccHHHHHHHccc
Coil and Loop (DISEMBL)
mgrsgrkkekhgkrgepsladsnegsaartrpfsfdeIMIRRKTKNLSENIKEdamdvsnipgdctienvsddhksgrhhghkkspgvdvhtseeyvkvgsgkkednaltknvdssrqrdgenrdLETKLKEDYVAKsnhrrtlkseirlkdrspgnekdrgnrgsdtklkadvtketsskpnvkseklipsqgrshnqsivdsrdeatkkhsrdltgkdrhadksgeksERESKrkhrnrddeknrdksaakkvdlgkghdlkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslspraqkrtsyydreheglpshstkissgrqhsdidssrvtgnglsghyrrhdgstsglggysprkrrteaaaktpspinrspekksakwdvapvetysvpsnvhtsnqaassnahemvssdpvtsttqkplagiSVSASLAKLNVSMdsvqltqsnrpmrrlcvenlplsASEKALMEFLNNFLLssgvqhvhgslpcigcviQREKGQAFVEFLTaedasaalccdgcsfsgsilkikrpkeFVEVASgeaeksvasvdsvsgivkdsphkifIGGISRTLSSKMVMEIVCAFgplkayhfevnedheepcaFIEYVDQLvtpkaiaglnglkvGGQVLTAVQAVLdgsimdnsgnppfhgipkhalpllkkptevlklknvfnpegfsslselEVEEVLEDVRLECarfgsvksvnvvkygdsnistiqacegnentasagvgqnltndetnekgerleevtdhksiknneLEILNDSkevmeagevnnvkdnrpasgtmgdepsqlcelDTDMAVEYqardstseivsqgvptqvntlkdspcahddkvtCNIQLEHMseenkssakedlnleevngnseaftgasnemgmqssavengdnenqdpnqghifepgCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVeyiplnlyrarfsk
Flexible Loop (DISEMBL)
mgrsgrkkekhgkrgepsladsnegsaartrpfsfdeimirRKTKNLSENIKEdamdvsnipgDCTIENVSDdhksgrhhghkkspgvdvhtSEEYVKvgsgkkednaltknvdssrqrdgenrdletklkedyvaksnhrrtlkseirlkdrspgnekdrgnrgsdtklkadvtketsskpnvkseklipsqgrshnqsivdsrdeatkkhsrdltgkdrhadksgeksereskrkhrnrddeknrdksaakkvdlgkghdlkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslspraqkrtsyydreheglpshstkissgrqhsdidssrvtgnglsghyrrhdgstsglggysprkrrteaaaktpspinrspekksakwdVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVqltqsnrpmrrLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFsgsilkikrPKEFVEVAsgeaeksvasvdsvsgivkdsphkiFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVfnpegfsslselEVEEVLEDVRLEcarfgsvksvnvvkyGDSNISTIQACEGNentasagvgqnltndetnekgerleevtdhksiknneleilndskevmeagevnnvkdnrpasgtmgdepSQLCELDTDMAVEYQARDstseivsqgvptqvntlkdspcahDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYiplnlyrarfsk
Low Complexity Region (SEG)
MgrsgrkkekhgkrgEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVsddhksgrhhghkksPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslsPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFsslseleveevledvrleCARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Disordered region (IsUnstruct)
********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA************SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQAC***********************************************************************************************************************************************************************************HIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRA****
Disordered Region (DISOPRED)
********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFV***********************SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV**********************************LKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQA***N*NTASAGVGQNLTNDETNEKG***************ELEILN*************************************************************************VTCNIQLEHM*************************************************QGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARF**
Disordered Region (DISEMBL)
****************************RTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVS********************TSEEYVKVGSGKKEDNA***************RDLETKLKEDYVAKSNHRRTLKSEIRLKDRS*******************************************************************************************************GKGHDLK****************************************************************************SRVTGNGLSGHYRRHD*************************************DVAPVETYSVPSNVH************************KPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVE****************SGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHM*********EDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Disordered Region (DISPRO)
*************************SAARTRPFSFDEIMIRRKTKNLSENIK***************************************************************************************************************************************************************************************************************************************************************************************************************************************************KWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGE****VASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS*******PPFH**********KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAG**Q*************************************************************************************************S***HDDKVTCNIQLEHM***********************************************PNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVSDDHKSGRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	967	2.2.26 [Sep-21-2011]
Q24562	416	Splicing factor U2AF 50 k	yes	no	0.316	0.735	0.299	6e-35
P26368	475	Splicing factor U2AF 65 k	yes	no	0.335	0.682	0.320	3e-33
P26369	475	Splicing factor U2AF 65 k	yes	no	0.336	0.684	0.315	3e-33
P90727	488	Splicing factor U2AF 65 k	N/A	no	0.314	0.622	0.313	3e-33
Q9ZR40	573	Splicing factor U2af larg	N/A	no	0.317	0.535	0.279	1e-22
Q9ZR39	555	Splicing factor U2af larg	N/A	no	0.319	0.556	0.267	1e-22
Q2QKB4	543	Splicing factor U2af larg	N/A	no	0.262	0.467	0.286	4e-20
Q8L716	589	Splicing factor U2af larg	no	no	0.278	0.456	0.267	3e-19
O23212	573	Splicing factor U2af larg	no	no	0.283	0.478	0.252	1e-18
Q2QZL4	548	Splicing factor U2af larg	no	no	0.264	0.467	0.288	2e-18

>sp|Q24562|U2AF2_DROME Splicing factor U2AF 50 kDa subunit OS=Drosophila melanogaster GN=U2af50 PE=2 SV=1

 Score =  150 bits (378), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 105/351 (29%), Positives = 170/351 (48%), Gaps = 45/351 (12%)

Query: 388 KKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKL 447
           K S  WDV P     +    + + QA+      +V   P T+    P+ G +++      
Sbjct: 39  KPSLYWDVPPPGFEHITPMQYKAMQASGQIPASVVPDTPQTAV---PVVGSTIT------ 89

Query: 448 NVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI 507
                        R  RRL V N+P   +E+ +MEF N  +   G+    GS P + C I
Sbjct: 90  -------------RQARRLYVGNIPFGVTEEEMMEFFNQQMHLVGLAQAAGS-PVLACQI 135

Query: 508 QREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA----SGEAEKSVASV 563
             +K  AF+EF + ++ + A+  DG +  G  LKI+RP ++  +     +   + +V S 
Sbjct: 136 NLDKNFAFLEFRSIDETTQAMAFDGINLKGQSLKIRRPHDYQPMPGITDTPAIKPAVVSS 195

Query: 564 DSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEY 621
             +S +V DSPHKIFIGG+   L+   V E++ +FG L+A++   +      +  AF EY
Sbjct: 196 GVISTVVPDSPHKIFIGGLPNYLNDDQVKELLLSFGKLRAFNLVKDAATGLSKGYAFCEY 255

Query: 622 VDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN---------PPFHGIPKHAL 672
           VD  +T ++IAGLNG+++G + L   +A +      N+ N         P    +     
Sbjct: 256 VDLSITDQSIAGLNGMQLGDKKLIVQRASVGAKNAQNAANTTQSVMLQVPGLSNVVTSG- 314

Query: 673 PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
                PTEVL L N+  P+      E E E++LED++ EC ++G V+SV +
Sbjct: 315 ----PPTEVLCLLNMVTPDELR--DEEEYEDILEDIKEECTKYGVVRSVEI 359

Necessary for the splicing of pre-mRNA. Binds to the polypyrimidine tract of introns early during spliceosome assembly.
Drosophila melanogaster (taxid: 7227)

>sp|P26368|U2AF2_HUMAN Splicing factor U2AF 65 kDa subunit OS=Homo sapiens GN=U2AF2 PE=1 SV=4

 Score =  144 bits (364), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 115/359 (32%), Positives = 177/359 (49%), Gaps = 35/359 (9%)

Query: 380 SPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGIS 439
           SP +   +K    WDV P     +    + + QAA                 Q P   + 
Sbjct: 79  SPRHEKKKKVRKYWDVPPPGFEHITPMQYKAMQAAG----------------QIPATALL 122

Query: 440 VSASLAKLNVSMDSVQL--TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVH 497
            + +   L V+   V +  +Q  R  RRL V N+P   +E+A+M+F N  +   G+    
Sbjct: 123 PTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAP 182

Query: 498 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAE 557
           G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +      
Sbjct: 183 GN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSEN 241

Query: 558 KSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEP 615
            SV     VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      + 
Sbjct: 242 PSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG 301

Query: 616 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPP-----------F 664
            AF EYVD  VT +AIAGLNG+++G + L  VQ    G+      +PP            
Sbjct: 302 YAFCEYVDINVTDQAIAGLNGMQLGDKKLL-VQRASVGAKNATLVSPPSTINQTPVTLQV 360

Query: 665 HGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
            G+    + +   PTEVL L N+  PE    L + E EE++EDVR EC+++G VKS+ +
Sbjct: 361 PGLMSSQVQMGGHPTEVLCLMNMVLPE--ELLDDEEYEEIVEDVRDECSKYGLVKSIEI 417

Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.

Homo sapiens (taxid: 9606)

>sp|P26369|U2AF2_MOUSE Splicing factor U2AF 65 kDa subunit OS=Mus musculus GN=U2af2 PE=1 SV=3

 Score =  144 bits (363), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 113/358 (31%), Positives = 174/358 (48%), Gaps = 33/358 (9%)

Query: 380 SPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGIS 439
           SP +   +K    WDV P     +    + + QAA                 Q P   + 
Sbjct: 79  SPRHEKKKKVRKYWDVPPPGFEHITPMQYKAMQAAG----------------QIPATALL 122

Query: 440 VSASLAKLNVSMDSVQL--TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVH 497
            + +   L V+   V +  +Q  R  RRL V N+P   +E+A+M+F N  +   G+    
Sbjct: 123 PTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAP 182

Query: 498 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAE 557
           G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +      
Sbjct: 183 GN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSEN 241

Query: 558 KSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEP 615
            SV     VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      + 
Sbjct: 242 PSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG 301

Query: 616 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLT----------AVQAVLDGSIMDNSGNPPFH 665
            AF EYVD  VT +AIAGLNG+++G + L           A    L  +I          
Sbjct: 302 YAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSLPSTINQTPVTLQVP 361

Query: 666 GIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
           G+    + +   PTEVL L N+  PE    L + E EE++EDVR EC+++G VKS+ +
Sbjct: 362 GLMSSQVQMGGHPTEVLCLMNMVLPE--ELLDDEEYEEIVEDVRDECSKYGLVKSIEI 417

Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.

Mus musculus (taxid: 10090)

>sp|P90727|U2AF2_CAEBR Splicing factor U2AF 65 kDa subunit OS=Caenorhabditis briggsae GN=uaf-1 PE=3 SV=2

 Score =  144 bits (363), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 108/345 (31%), Positives = 174/345 (50%), Gaps = 41/345 (11%)

Query: 384 RSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSAS 443
           R P KK   WDV P    ++    + + QA+ +     V S         P+ G SV+  
Sbjct: 122 REP-KKYRFWDVPPTGFENITPMEYKNMQASGAVPRGSVQS-------AVPVVGPSVTC- 172

Query: 444 LAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI 503
                         QS    RRL V N+P   +E+A+++F N  +    +    G+ P +
Sbjct: 173 --------------QS----RRLYVGNIPFGCNEEAMLDFFNQQMHLCNLAQAPGN-PIL 213

Query: 504 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASV 563
            C I  +K  AF+EF + ++ +A +  DG +F G  LK++RP+++      +    + + 
Sbjct: 214 LCQINLDKNFAFIEFRSIDETTAGMAFDGINFMGQQLKVRRPRDY---QPSQNTFDMNAR 270

Query: 564 DSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYV 622
             VS IV DS +KIFIGG+   L+   V E++C+FGPLKA+   V+ + + +  AF EY+
Sbjct: 271 MPVSSIVVDSANKIFIGGLPNYLTEDQVKELLCSFGPLKAFSLNVDSQGNSKGYAFAEYL 330

Query: 623 DQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP----PFHGIPKHALPLLKKP 678
           D  +T +AIAGLNG+++G + L  VQ         N+  P       GI         + 
Sbjct: 331 DPTLTDQAIAGLNGMQLGDKQLV-VQLACANQTRHNTHLPNSASAIAGIDLSQGA--GRA 387

Query: 679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
           TE+L L N+   +     S+ + EE+LEDVR EC+++G V+S+ +
Sbjct: 388 TEILCLMNMVTEDELR--SDEDYEEILEDVREECSKYGIVRSLEI 430

Necessary for the splicing of pre-mRNA. Binds to the polypyrimidine tract of introns early during spliceosome assembly.

Caenorhabditis briggsae (taxid: 6238)

>sp|Q9ZR40|U2A2B_NICPL Splicing factor U2af large subunit B OS=Nicotiana plumbaginifolia GN=U2AF65B PE=2 SV=1

 Score =  109 bits (273), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 101/361 (27%), Positives = 166/361 (45%), Gaps = 54/361 (14%)

Query: 393 WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMD 452
           +D+AP  +  +P     + Q   +N        P       PLA    S     L V   
Sbjct: 177 FDMAPPTSAMLPGITAAAGQVPGTN-----PPIPGMFPNMFPLA----SGQFGALPVMPI 227

Query: 453 SVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG 512
                Q+ R  RR+ V  LP  A+E+++  F ++ + + G          +   I  EK 
Sbjct: 228 QAMTQQATRHARRVYVGGLPAHANEQSVATFFSHVMSAIGGNTAGPGDAVVNVYINYEKK 287

Query: 513 QAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASGEAEK----SVASV-- 563
            AFVE  + E+AS A+  DG  F G+  K++RP ++   +    G ++     ++A+V  
Sbjct: 288 FAFVEMRSVEEASNAMALDGIIFEGAPCKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGL 347

Query: 564 --DSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCA 617
              S  G+  + P +IF+GG+    +   + E++ +FGPL+   F++ +D E    +  A
Sbjct: 348 SPGSAGGL--EGPDRIFVGGLPYYFTEAQIRELLESFGPLRG--FDLVKDRETGNSKGYA 403

Query: 618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN----PPFHGIPKHALP 673
           F  Y D  VT  A A LNG+K+G + LT  +A        N G     P    +  HA  
Sbjct: 404 FCVYQDVSVTDIACAALNGIKMGDKTLTVRRA--------NQGTTQPKPEQESVLLHAQQ 455

Query: 674 ------LLKKP----TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
                 L+ +P    T+VL L  V + +  +   + + +++LED+R EC +FGS+  VNV
Sbjct: 456 QIALQRLMLQPATLATKVLSLTEVISADELN--DDEDYQDILEDMRTECGKFGSL--VNV 511

Query: 724 V 724
           V
Sbjct: 512 V 512

Necessary for the splicing of pre-mRNA. Binds to the U -enriched regions of plant introns.

Nicotiana plumbaginifolia (taxid: 4092)

>sp|Q9ZR39|U2A2A_NICPL Splicing factor U2af large subunit A OS=Nicotiana plumbaginifolia GN=U2AF65A PE=2 SV=1

 Score =  108 bits (271), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 96/359 (26%), Positives = 166/359 (46%), Gaps = 50/359 (13%)

Query: 393 WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMD 452
           +D+AP  T  +P     + Q   +N      + P   +   PLA    S+    L +   
Sbjct: 159 FDMAPPTTALLPGATDAAGQVPGTN-----PAIPGLFSNMFPLA----SSQFGALPMMPV 209

Query: 453 SVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG 512
                Q+ R  RR+ V  LP +A+E+++  F ++ + + G          +   I  EK 
Sbjct: 210 QAMTQQATRHARRVYVGGLPPTANEQSVATFFSHVMYAIGGNTAGPGDAVVNVYINHEKK 269

Query: 513 QAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASGEAEKS----VASVDS 565
            AFVE  + E+AS A+  DG  F G  +K++RP ++   +    G ++ S    +A+V S
Sbjct: 270 FAFVEMRSVEEASNAMALDGVIFEGGPVKVRRPSDYNPSLAATLGPSQPSPNLNLAAVGS 329

Query: 566 VSGIVK--DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFI 619
             G     + P +IF+GG+    +   + E++ +FG L+   F++ +D E    +  AF 
Sbjct: 330 TPGSSGGLEGPDRIFVGGLPYYFTESQIRELLESFGQLRG--FDLVKDRETGNSKGYAFC 387

Query: 620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPT 679
            Y D  VT  A A LNG+K+G + LT V+    G+   N         P+    LL    
Sbjct: 388 VYQDVSVTDIACAALNGIKMGDKTLT-VRRANQGTTQPN---------PEQESVLLHAQQ 437

Query: 680 EVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRLECARFGSVKSVNVV 724
           ++   + +  P   ++    L+E+          + +++LED+R EC +FG++  VNVV
Sbjct: 438 QIALQRFMLQPGALATKVLCLTEVVTVDELNDDDDYQDILEDMRTECEKFGAL--VNVV 494

Necessary for the splicing of pre-mRNA. Binds to the U -enriched regions of plant introns.

Nicotiana plumbaginifolia (taxid: 4092)

>sp|Q2QKB4|U2A2B_WHEAT Splicing factor U2af large subunit B OS=Triticum aestivum GN=U2AF65B PE=2 SV=1

 Score =  100 bits (250), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 84/293 (28%), Positives = 141/293 (48%), Gaps = 39/293 (13%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           Q+ R  RR+ V  LP SA+E+++  + N  + + G          +   I  +K  AFVE
Sbjct: 201 QATRHARRVYVGGLPPSANEQSVAIYFNQVMAAIGGNTAGPGDAVLNVYINHDKKFAFVE 260

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASGEAEKS----VASVDSVSGIV 570
             + E+AS A+  DG  F G+ +K++RP ++   +  A G ++ S    +A+V    G  
Sbjct: 261 MRSVEEASNAMALDGILFEGAPVKVRRPTDYNPSLAAALGPSQPSSNLNLAAVGLTPGSA 320

Query: 571 K--DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQ 624
              + P +IF+GG+    +   V E++ +FGPL+   F++ +D E    +  AF  Y D 
Sbjct: 321 GGLEGPDRIFVGGLPYYFTEAQVRELLESFGPLRG--FDLVKDRETGNSKGYAFCVYQDL 378

Query: 625 LVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN----PPFHGI----------PKH 670
            VT  A A LNG+K+G + LT  +A        N G+    P    I           K 
Sbjct: 379 NVTDIACAALNGIKMGDKTLTVRRA--------NQGSAQPRPEQENILLQAQQQVQLQKL 430

Query: 671 ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
              +   PT+V+ L  V   +      + E E+++ED+RLE  ++G++  V +
Sbjct: 431 VYQVGALPTKVVCLTQVVTADELK--DDEEYEDIMEDMRLEAGKYGNLVKVVI 481

Necessary for the splicing of pre-mRNA.

Triticum aestivum (taxid: 4565)

>sp|Q8L716|U2A2B_ARATH Splicing factor U2af large subunit B OS=Arabidopsis thaliana GN=U2AF65B PE=2 SV=2

 Score = 97.8 bits (242), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 82/306 (26%), Positives = 144/306 (47%), Gaps = 37/306 (12%)

Query: 444 LAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI 503
           L  L V        Q+ R  RR+ V  LP +A+E+++  F +  + + G          +
Sbjct: 235 LGALPVLPVQAMTQQATRHARRVYVGGLPPTANEQSVSTFFSQVMSAIGGNTAGPGDAVV 294

Query: 504 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASGEAEK-- 558
              I  EK  AFVE  + E+AS A+  DG    G  +K++RP ++   +    G ++   
Sbjct: 295 NVYINHEKKFAFVEMRSVEEASNAMALDGIILEGVPVKVRRPTDYNPSLAATLGPSQPNP 354

Query: 559 --SVASVDSVSGIVK--DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--H 612
             ++ +V   SG     + P +IF+GG+    +   + E++ +FGPL+ ++   + +  +
Sbjct: 355 NLNLGAVGLSSGSTGGLEGPDRIFVGGLPYYFTEVQIRELLESFGPLRGFNLVKDRETGN 414

Query: 613 EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHAL 672
            +  AF  Y D  VT  A A LNG+K+G + LT V+  + G+I            P+   
Sbjct: 415 SKGYAFCVYQDPSVTDIACAALNGIKMGDKTLT-VRRAIQGAIQPK---------PEQEE 464

Query: 673 PLLKKPTEVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRLECARFGSV 718
            LL    ++   + +F P G  +    L+++          E  E++ED+R E  +FG++
Sbjct: 465 VLLYAQQQIALQRLMFQPGGTPTKIVCLTQVVTADDLRDDEEYAEIMEDMRQEGGKFGNL 524

Query: 719 KSVNVV 724
             VNVV
Sbjct: 525 --VNVV 528

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|O23212|U2A2A_ARATH Splicing factor U2af large subunit A OS=Arabidopsis thaliana GN=U2AF65A PE=2 SV=2

 Score = 96.3 bits (238), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 79/313 (25%), Positives = 145/313 (46%), Gaps = 39/313 (12%)

Query: 438 ISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVH 497
           +    S   L++        Q+ R  RR+ V  L  +A+E+++  F +  + + G     
Sbjct: 213 LPTGQSFGGLSMMPIQAMTQQATRHARRVYVGGLSPTANEQSVATFFSQVMAAVGGNTAG 272

Query: 498 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASG 554
                +   I  EK  AFVE  + E+AS A+  DG  F G+ +K++RP ++   +    G
Sbjct: 273 PGDAVVNVYINHEKKFAFVEMRSVEEASNAMSLDGIIFEGAPVKVRRPSDYNPSLAATLG 332

Query: 555 EAEKS----VASVDSVSGIVK--DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV 608
            ++ S    +A+V    G     + P +IF+GG+    +   V E++ +FG LK   F++
Sbjct: 333 PSQPSPHLNLAAVGLTPGASGGLEGPDRIFVGGLPYYFTESQVRELLESFGGLKG--FDL 390

Query: 609 NEDHE----EPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPF 664
            +D E    +  AF  Y D  VT  A A LNG+K+G + LT V+    G+++        
Sbjct: 391 VKDRETGNSKGYAFCVYQDLSVTDIACAALNGIKMGDKTLT-VRRANQGTMLQK------ 443

Query: 665 HGIPKHALPLLKKPTEVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRL 710
              P+    LL    ++   + +  P   ++    L+++          E  +++ED+R 
Sbjct: 444 ---PEQENVLLHAQQQIAFQRVMLQPGAVATTVVCLTQVVTEDELRDDEEYGDIMEDMRQ 500

Query: 711 ECARFGSVKSVNV 723
           E  +FG++ +V +
Sbjct: 501 EGGKFGALTNVVI 513

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q2QZL4|U2A2B_ORYSJ Splicing factor U2af large subunit B OS=Oryza sativa subsp. japonica GN=U2AF65B PE=2 SV=2

 Score = 95.1 bits (235), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 84/291 (28%), Positives = 142/291 (48%), Gaps = 35/291 (12%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           Q+ R  RR+ V  LP +A+E+++  + N  + + G          +   I  +K  AFVE
Sbjct: 208 QATRHARRVYVGGLPPTANEQSVAIYFNQVMAAIGGNTAGPGDAVLNVYINHDKKFAFVE 267

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKEF---VEVASGEAEKS----VASVDSVSGIV 570
             + E+AS A+  DG  F G+ +K++RP ++   +  A G ++ S    +A+V    G  
Sbjct: 268 MRSVEEASNAMALDGILFEGAPVKVRRPTDYNPSLAAALGPSQPSPNLNLAAVGLTPGSA 327

Query: 571 K--DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQ 624
              + P +IF+GG+    +   V E++ +FGPL+   F++ +D E    +  AF  Y D 
Sbjct: 328 GGLEGPDRIFVGGLPYYFTEAQVRELLESFGPLRG--FDLVKDRETGNSKGYAFCVYQDL 385

Query: 625 LVTPKAIAGLNGLKVGGQVLTAVQAVLDG--------SIMDNSGNPPFHGIPKHALPLLK 676
            VT  A A LNG+K+G + LT  +A            SI+  +          + +  L 
Sbjct: 386 NVTDIACAALNGIKMGDKTLTVRRANQGAAQPRPEQESILLQAQQQVQLQKLVYQVGAL- 444

Query: 677 KPTEVLKLKNVFNPEGFSSLSEL----EVEEVLEDVRLECARFGSVKSVNV 723
            PT+V+ L  V       S  EL    E E+++ED+RLE  ++G++  V +
Sbjct: 445 -PTKVVCLTQVV------SADELKDDEEYEDIMEDMRLEAGKYGNLIKVVI 488

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	967
118489922	787	unknown [Populus trichocarpa x Populus d	0.760	0.933	0.569	0.0
359477752	895	PREDICTED: uncharacterized protein LOC10	0.904	0.977	0.477	0.0
296083697	882	unnamed protein product [Vitis vinifera]	0.857	0.939	0.464	0.0
255575831	844	splicing factor u2af large subunit, puta	0.778	0.892	0.487	0.0
449458894	910	PREDICTED: uncharacterized protein LOC10	0.898	0.954	0.384	1e-150
449498643	918	PREDICTED: uncharacterized LOC101213128	0.898	0.946	0.382	1e-150
356536627	735	PREDICTED: uncharacterized protein LOC10	0.722	0.951	0.425	1e-139
218192051	1128	hypothetical protein OsI_09930 [Oryza sa	0.927	0.795	0.369	1e-126
147852616	544	hypothetical protein VITISV_009755 [Viti	0.532	0.946	0.527	1e-126
108706080	964	RNA recognition motif family protein, ex	0.927	0.930	0.369	1e-125

>gi|118489922|gb|ABK96758.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  792 bits (2046), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/786 (56%), Positives = 553/786 (70%), Gaps = 51/786 (6%)

Query: 204 SRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDL 263
           S  EA KKHSR++  KDRH DKS  KSERE K K+RN  D+K+RD++AAKK DLGKGH L
Sbjct: 31  SESEAVKKHSREVQ-KDRHVDKSRGKSERERKEKYRNGIDDKSRDRNAAKKHDLGKGHHL 89

Query: 264 KVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLP 323
           + SERKE+KES KS H   RLKRRRSRSRE EDRNRRS+SLSPRA KR SY+ REH  L 
Sbjct: 90  ETSERKERKESSKSHHEELRLKRRRSRSREHEDRNRRSISLSPRAHKRGSYHKREHVELS 149

Query: 324 SHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPIN 383
            HS K  SGRQ SD +++++  +  S H RRH G  SGLGGYSPRKR+TEAA KTPSP  
Sbjct: 150 LHSVKERSGRQQSDAENNQLANSSSSRHQRRHGGFASGLGGYSPRKRKTEAAVKTPSPAK 209

Query: 384 RSPEKKSAKWDVAPVETYSV-----PSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGI 438
           RSPEKKSAKWD+AP ET +V      SN  + NQ ASSN HE+VS+ PV S   KP +G+
Sbjct: 210 RSPEKKSAKWDLAPEETNNVFPAVILSNFQSPNQTASSNIHEVVSAVPVVSAPMKPPSGV 269

Query: 439 SVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG 498
           S+S+      VS +S+QLTQ+  P+RRL +EN+P SASEKA+M+ LNNFL+SSGV H+ G
Sbjct: 270 SLSSLSTATKVSTESIQLTQATHPIRRLYMENIPASASEKAVMDCLNNFLISSGVHHIQG 329

Query: 499 SLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEK 558
           + PCI C+ Q+EKGQA VEFLT EDASAAL  DG SFSGSI+K++RPK+F+EVA+GE EK
Sbjct: 330 TQPCISCIRQKEKGQALVEFLTPEDASAALSFDGRSFSGSIIKVRRPKDFIEVATGELEK 389

Query: 559 SVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAF 618
           S A++D++  IVKDSPHKIFIGGIS+ LSSKM+MEI  AFGPLKAY FE  +D +EP AF
Sbjct: 390 SAAAIDAIGDIVKDSPHKIFIGGISKVLSSKMLMEIASAFGPLKAYQFENRKDPDEPFAF 449

Query: 619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKP 678
           +EY D+ VT KA AGLNG+K+GGQV+TA+QAV + S   + GN  F  I +HA  LL+KP
Sbjct: 450 LEYADESVTFKACAGLNGMKLGGQVITAIQAVPNASSSGSDGNSQFGQISQHAKALLEKP 509

Query: 679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACE 738
           TEVLKLKNVF+ E  SSLS  EVEEVLEDVRLECARFGSVKS+NV+KY    IST ++CE
Sbjct: 510 TEVLKLKNVFDSESLSSLSNTEVEEVLEDVRLECARFGSVKSINVIKYAAITISTSKSCE 569

Query: 739 GNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKD 798
            N++T SA   Q+L  D TN K   +    D K +                  E N++ D
Sbjct: 570 FNDDTVSAEATQSLGCDGTNPKTRNIRGSIDQKFM------------------EGNSIGD 611

Query: 799 NRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTC 858
           ++PAS  M DEP Q  ++D+DMAV+  A  S+S+  SQ  P  V+       ++ DKVT 
Sbjct: 612 DKPASDVMEDEPCQPGQVDSDMAVQDLACKSSSD--SQEPPQDVSD------SNVDKVTD 663

Query: 859 NIQLEHMSEENKSSAKED----------------LNLEEVNGNSE-AFTGASNEMGMQSS 901
           +I++E +  ENKS+A ED                LNLEEV+G+ E AF   S  M M+ +
Sbjct: 664 DIEIEEVDAENKSTAGEDLNLKEVGDNKLMAGEELNLEEVSGDVEKAFVNDS--MEMKPN 721

Query: 902 AVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLY 961
           ++E GD + QD + G IFE GCVFVE+ R E +CMAAH LH RLFDDR V VEY+PL++Y
Sbjct: 722 SIEKGDCKEQDCSLGLIFERGCVFVEFRRTEGACMAAHCLHGRLFDDRAVVVEYVPLDIY 781

Query: 962 RARFSK 967
            ARF K
Sbjct: 782 LARFPK 787

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477752|ref|XP_002281833.2| PREDICTED: uncharacterized protein LOC100266510 [Vitis vinifera]

 Score =  754 bits (1948), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/987 (47%), Positives = 604/987 (61%), Gaps = 112/987 (11%)

Query: 1   MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSN 60
           M RS R KEK+GK  E  L +  EG+AARTRPFSFDEIM+RRK K L  ++K+ A +  N
Sbjct: 1   MSRSNRPKEKYGKSTELYLDNFKEGTAARTRPFSFDEIMLRRKNKKLYGDVKDGAGEEGN 60

Query: 61  IPGDCTIENVSDDHKS--GRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQ 118
           I     ++NVSD ++S  G  H     PG   H+SE++VKV S KK++N   K  +    
Sbjct: 61  ISRKDIVKNVSDCYESDKGYKHNEDSFPGAINHSSEDFVKVSSRKKDENTSMKEGNLGNV 120

Query: 119 RDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKET 178
           +D E+ + E KLK    AK N   T                             D +KE 
Sbjct: 121 KDKESHNSEDKLK----AKPNKGMT-----------------------------DKSKEG 147

Query: 179 SSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKH 238
                V   K I  + R  +     S  E  KK SRD  GKDR+AD+S  KSE+ESKRKH
Sbjct: 148 KINQRVHGRKKIDERSRRSSDD---SESEPEKKFSRDSVGKDRYADRS-RKSEKESKRKH 203

Query: 239 RNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSRERE-DR 297
           R  +DEKNR++++ KK D GK H+ +  +RKE++ESP SR+  SR KRRRSRSRER+ DR
Sbjct: 204 RTGEDEKNRERNSMKKHDPGKRHESEFLDRKERRESPPSRYEESRPKRRRSRSRERDKDR 263

Query: 298 NRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDG 357
           ++RS SLSPRAQKRTS++ REH  L  HS K  SGRQHSD D +R++ NG S H+RRH G
Sbjct: 264 DKRSSSLSPRAQKRTSHHGREHAELSLHSLKDRSGRQHSDADRNRISNNGSSSHFRRHGG 323

Query: 358 STSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVET-----YSVPSNVHTSNQ 412
           S SGLGGYSPRKRRTEAA KTPSP NRSPEKKSA WD+ P  T      SV S++     
Sbjct: 324 SASGLGGYSPRKRRTEAAIKTPSPTNRSPEKKSAGWDLPPSRTDGMNAGSVLSSLQVLKP 383

Query: 413 AASSNAHEMVS----SDPVTSTTQK-PLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLC 467
             SSNA E+ S    + PVT+TT K PL  I   A     NVS+DS+QLTQ+ RPMRRL 
Sbjct: 384 TVSSNADELPSAVPVAVPVTATTAKPPLPRIYSDAVSKNKNVSIDSIQLTQATRPMRRLY 443

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           VENLP+S+SEKALME LNNFLLSSG+ HV G+ PCI C+I +EKGQA VEFLT EDASAA
Sbjct: 444 VENLPVSSSEKALMECLNNFLLSSGINHVQGTPPCISCIIHKEKGQALVEFLTPEDASAA 503

Query: 528 LCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLS 587
           L  DG SFSGSILKI+RPK+F                                       
Sbjct: 504 LSFDGISFSGSILKIRRPKDF--------------------------------------- 524

Query: 588 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV 647
              +MEI  AFGPLKAY F+VNED  EPCAF+EYVDQ VT KA AGLNG+K+GGQVLT V
Sbjct: 525 ---LMEIAAAFGPLKAYRFQVNEDLGEPCAFLEYVDQSVTLKACAGLNGMKLGGQVLTVV 581

Query: 648 QAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLED 707
           QA+ +   M+N+GN PF+GIP+HA PLL++PT+VLKLKNV NP+  SSLSE E+EE+LED
Sbjct: 582 QAIPNALAMENTGNLPFYGIPEHAKPLLERPTQVLKLKNVVNPDDLSSLSEAELEEILED 641

Query: 708 VRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV 767
           +RLEC RFG+VKSVN+VKY +S++ST++  E  +NT     G NL  D  + K E L   
Sbjct: 642 IRLECTRFGTVKSVNIVKYNNSHVSTLEVYEAADNT-----GSNLGCDGNSMKAETLGGG 696

Query: 768 TDHKSIKNNELEILNDSKEVMEAGEV---NNVKDNRPASGTMGDEPSQLCELDTDMAVEY 824
           TD+ S   + ++   D K++ E  EV   N++ D++  +  + +E  +   +D++ AV+ 
Sbjct: 697 TDNGSSDISGIKPPTDVKDLKEVDEVVERNSISDDKSLTDLIKNELCEPSHIDSNTAVKE 756

Query: 825 QARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNG 884
                 S+ + +G+P Q+N +K      +DK    IQ + + +    + +E+ N      
Sbjct: 757 PGCPDGSDDIPRGLPDQLNNMKHEVELRNDKAADVIQEDFIIKNKLMTVEEETN------ 810

Query: 885 NSEAFTGASNEM----GMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHS 940
                 G S E+    G++S      D+E    +   +FE GCV VEY R EASCMAAH 
Sbjct: 811 --RKLLGTSAELDSSPGIKSDFTGKNDSEKGLCDLDDMFEVGCVLVEYGRTEASCMAAHC 868

Query: 941 LHRRLFDDRIVAVEYIPLNLYRARFSK 967
           LH R FDDR+V V Y+ L+LYR +F +
Sbjct: 869 LHGRYFDDRVVVVGYVALDLYRMKFPR 895

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083697|emb|CBI23686.3| unnamed protein product [Vitis vinifera]

 Score =  729 bits (1882), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 445/959 (46%), Positives = 571/959 (59%), Gaps = 130/959 (13%)

Query: 16  EPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVSDDHK 75
           E  L +  EG+AARTRPFSFDEIM+RRK K L  ++K+ A +  NI     ++NVSD ++
Sbjct: 47  ELYLDNFKEGTAARTRPFSFDEIMLRRKNKKLYGDVKDGAGEEGNISRKDIVKNVSDCYE 106

Query: 76  S--GRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKED 133
           S  G  H     PG   H+SE++VKV S KK++N   K  +    +D E+ + E KLK  
Sbjct: 107 SDKGYKHNEDSFPGAINHSSEDFVKVSSRKKDENTSMKEGNLGNVKDKESHNSEDKLK-- 164

Query: 134 YVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQ 193
             AK N   T                             D +KE      V   K I  +
Sbjct: 165 --AKPNKGMT-----------------------------DKSKEGKINQRVHGRKKIDER 193

Query: 194 GRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAK 253
            R  +     S  E  KK SRD  GKDR+AD+S  KSE+ESKRKHR  +DEKNR++++ K
Sbjct: 194 SRRSSDD---SESEPEKKFSRDSVGKDRYADRS-RKSEKESKRKHRTGEDEKNRERNSMK 249

Query: 254 KVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTS 313
           K D GK                  RH +  L R+  R                       
Sbjct: 250 KHDPGK------------------RHESEFLDRKERR----------------------- 268

Query: 314 YYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTE 373
                 E  PS        RQHSD D +R++ NG S H+RRH GS SGLGGYSPRKRRTE
Sbjct: 269 ------ESPPSR-------RQHSDADRNRISNNGSSSHFRRHGGSASGLGGYSPRKRRTE 315

Query: 374 AAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQK 433
           AA KTPSP NRSPEKKSA WD+ P  T  + +    SN+  S+    +  + PVT+TT K
Sbjct: 316 AAIKTPSPTNRSPEKKSAGWDLPPSRTDGMNAGSVLSNELPSA----VPVAVPVTATTAK 371

Query: 434 P-LAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSG 492
           P L  I   A     NVS+DS+QLTQ+ RPMRRL VENLP+S+SEKALME LNNFLLSSG
Sbjct: 372 PPLPRIYSDAVSKNKNVSIDSIQLTQATRPMRRLYVENLPVSSSEKALMECLNNFLLSSG 431

Query: 493 VQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA 552
           + HV G+ PCI C+I +EKGQA VEFLT EDASAAL  DG SFSGSILKI+RPK+FV++ 
Sbjct: 432 INHVQGTPPCISCIIHKEKGQALVEFLTPEDASAALSFDGISFSGSILKIRRPKDFVDM- 490

Query: 553 SGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH 612
           +G  EK VA+ D++S IVKDSPHKIFIGGISR LSS M+MEI  AFGPLKAY F+VNED 
Sbjct: 491 TGVQEKLVAAPDAISDIVKDSPHKIFIGGISRALSSDMLMEIAAAFGPLKAYRFQVNEDL 550

Query: 613 EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHAL 672
            EPCAF+EYVDQ VT KA AGLNG+K+GGQVLT VQA+ +   M+N+GN PF+GIP+HA 
Sbjct: 551 GEPCAFLEYVDQSVTLKACAGLNGMKLGGQVLTVVQAIPNALAMENTGNLPFYGIPEHAK 610

Query: 673 PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS 732
           PLL++PT+VLKLKNV NP+  SSLSE E+EE+LED+RLEC RFG+VKSVN+VKY +S++S
Sbjct: 611 PLLERPTQVLKLKNVVNPDDLSSLSEAELEEILEDIRLECTRFGTVKSVNIVKYNNSHVS 670

Query: 733 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGE 792
           T++  E  +NT     G NL  D  + K E L   TD+ SI               E  E
Sbjct: 671 TLEVYEAADNT-----GSNLGCDGNSMKAETLGGGTDNGSID--------------EVVE 711

Query: 793 VNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAH 852
            N++ D++  +  + +E  +   +D++ AV+       S+ + +G+P Q+N +K      
Sbjct: 712 RNSISDDKSLTDLIKNELCEPSHIDSNTAVKEPGCPDGSDDIPRGLPDQLNNMKHEVELR 771

Query: 853 DDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEM----GMQSSAVENGDN 908
           +DK    IQ + + +    + +E+ N            G S E+    G++S      D+
Sbjct: 772 NDKAADVIQEDFIIKNKLMTVEEETN--------RKLLGTSAELDSSPGIKSDFTGKNDS 823

Query: 909 ENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
           E    +   +FE GCV VEY R EASCMAAH LH R FDDR+V V Y+ L+LYR +F +
Sbjct: 824 EKGLCDLDDMFEVGCVLVEYGRTEASCMAAHCLHGRYFDDRVVVVGYVALDLYRMKFPR 882

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575831|ref|XP_002528813.1| splicing factor u2af large subunit, putative [Ricinus communis] gi|223531725|gb|EEF33547.1| splicing factor u2af large subunit, putative [Ricinus communis]

 Score =  687 bits (1774), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/824 (48%), Positives = 524/824 (63%), Gaps = 71/824 (8%)

Query: 150 LKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEAT 209
           +KD      KDR  + S+ KLK++V ++   KP  ++ + I  + +S  Q   + ++E  
Sbjct: 86  MKDEYITKSKDREIQDSEVKLKSEVHRDL--KPKGRAGEEIYDRRKSDEQRSNNVKNEDL 143

Query: 210 KKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERK 269
           KKH R LT + RH D S   SERE K K+R   DEKN+D+   +K DLGKGHD +  ++K
Sbjct: 144 KKHPRHLTERVRHEDGSRGVSEREDKSKYRKGVDEKNKDRLPTRKHDLGKGHDSENLDKK 203

Query: 270 EKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPS-HSTK 328
           EK E  KS +   +LK RRSRSREREDR RRS+S  PR++K  SY+DREH G PS H  K
Sbjct: 204 EKDELSKSHYEEIKLKSRRSRSREREDRKRRSISPLPRSRKHASYHDREH-GEPSLHFLK 262

Query: 329 ISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEK 388
             SG+QHSDID +++T NG +GHY+RH GS S LGGYSPRKRR+EAAA+TPSP   SPEK
Sbjct: 263 GKSGQQHSDIDRNKITNNGSTGHYKRHGGSASRLGGYSPRKRRSEAAARTPSPTKHSPEK 322

Query: 389 KSAKWDVAP-----VETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSAS 443
           K AKWD+AP       + SVP     SNQ AS NA   VS+ PV S   KPL+G+S +  
Sbjct: 323 KKAKWDLAPEGADSTFSVSVPPIFKLSNQIASLNARATVSAVPVASIPVKPLSGVSSNIL 382

Query: 444 LAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI 503
           L   N ++DSVQLTQ+ RPMRRL VEN+P  ASEKA++E LNN L+SSGV H+ G+ PCI
Sbjct: 383 LTNKNDTIDSVQLTQATRPMRRLYVENIPAEASEKAVLERLNNLLISSGVNHIQGTQPCI 442

Query: 504 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASV 563
            C+I +EKGQA VEFLT EDASAAL  DG  FSGS +KI+RPK+F               
Sbjct: 443 SCIIHKEKGQALVEFLTPEDASAALSFDGSYFSGSTIKIRRPKDF--------------- 487

Query: 564 DSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD 623
                                      +MEI   FGPLKAYHFE  +D   PCAF+EY D
Sbjct: 488 ---------------------------IMEIASTFGPLKAYHFENIDDVNGPCAFVEYAD 520

Query: 624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLK 683
           Q VT +A AGLNG+K+GGQV++AVQ + + S ++  G  PF+G+P+ A PLL KPT+VLK
Sbjct: 521 QSVTFRACAGLNGMKLGGQVISAVQVIPNASTLEIDGKQPFYGVPEQAKPLLDKPTQVLK 580

Query: 684 LKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENT 743
           LKN+F+PE   SLS +E+EEVLEDVRLECARFG+VKSVNVV+ G   I T +AC+ NE+ 
Sbjct: 581 LKNLFDPETLPSLSRIEIEEVLEDVRLECARFGTVKSVNVVRNGPIPIFTSEACKMNEDM 640

Query: 744 ASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPAS 803
            SAG  QNL  DETN + E+      H+ ++ N+    +D K V    E N V+D++PA 
Sbjct: 641 DSAGPQQNLGGDETNAETEKTIGDIHHEPVEAND---TDDDKPV----EGNGVEDDKPAD 693

Query: 804 GTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLE 863
             M DE SQL + D++MAVE  + D   E   + +P Q  +  +S C H  KVT ++Q++
Sbjct: 694 DLMEDESSQLGQFDSNMAVENLSGDGVPE-PQEPIPIQQTSKDESDCLH-GKVTDDVQMK 751

Query: 864 HMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGC 923
               E+K   +++L         E+FT   N+  ++S A   GD+E  + +  +IF P C
Sbjct: 752 DTIAEHKLPIQQELK--------ESFT---NDHAVESDATGKGDHEEHNCDLSYIFYPSC 800

Query: 924 VFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
           VFVE+ R EASC+AAH LH RL+D R V V YIPL++YR+RF K
Sbjct: 801 VFVEFGRTEASCIAAHCLHGRLYDGRTVTVGYIPLDVYRSRFPK 844

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458894|ref|XP_004147181.1| PREDICTED: uncharacterized protein LOC101213128 [Cucumis sativus]

 Score =  539 bits (1389), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 388/1008 (38%), Positives = 538/1008 (53%), Gaps = 139/1008 (13%)

Query: 1   MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSN 60
           M   G  K+   +  + + ++S++ SAARTRPFSF++IM+RRKTK  +  ++ DA     
Sbjct: 1   MSTHGCSKQYSRRSKKQTRSNSDDESAARTRPFSFEDIMLRRKTKGSAATVEVDATS--- 57

Query: 61  IPGDCTIENVSDDHKSGRHHGHKKSPGVDVHT---SEEYVKVGSGKKEDNALTKN---VD 114
                     +D+  S R   H K   +DV      EE  K  S +K++  + KN   V 
Sbjct: 58  ----------TDNRASERIFRHSKGSSLDVQNLSLEEESAKDSSRRKKEETVLKNNMVVR 107

Query: 115 SSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADV 174
           S R        L +KLK        H R    E     R    ++  G   +D   + D+
Sbjct: 108 SDRNNYESGLSLMSKLK--------HDRNENDE-----RQKYGQESLGWGKNDQSCRIDI 154

Query: 175 TKETSSKPN----VKSEKLIPSQGRSHNQSIV------DSRDEATKKHSR---DLTGKD- 220
             ET+ + +     K  +   S+G S  +S        D R+  +K+ S+   D   KD 
Sbjct: 155 ETETAKRHSRDTACKDRRQDHSRGESEKESKRKPQNGEDDRNRDSKRKSQNVDDEINKDG 214

Query: 221 -RHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRH 279
            R +    +   R SKRK +N DD++NRDK  AKK D GK HDL+  ERKE   S  SR+
Sbjct: 215 KRKSQNGDDDKNRVSKRKSQNGDDDRNRDKYIAKKHDHGKHHDLENRERKEAVVSLTSRY 274

Query: 280 GNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDID 339
            +SRLKRR+ RS +RE ++RRS+SLSPR+ K ++   R+ E LP  S    SGR  SD +
Sbjct: 275 EDSRLKRRQKRSPDRESKHRRSVSLSPRSHKHSTKLARQKE-LPLESHVKKSGRWRSDSE 333

Query: 340 SSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVE 399
            +    N  +  YRRH GSTSGLGGYSPRKRRTE+A KTPSP+ R+PE+K+   D+ P E
Sbjct: 334 RTGDFTNTSNSQYRRHSGSTSGLGGYSPRKRRTESAVKTPSPL-RTPEEKNEVLDLPPTE 392

Query: 400 TY-----SVPSNVHTSNQAASSN-AHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDS 453
                  SV SN   SN   S   +++       +S   K L+ +S +    K  VS+D 
Sbjct: 393 KVGLFSGSVASNFPPSNPTVSLGISNDQSGGAFFSSAMGKSLSVVSSNNIAMKTKVSLDL 452

Query: 454 VQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ 513
           VQLTQ+ RPMRRL +ENLP SASEKA+++ LN FL+SSGV H+ G+ PCI C+I +++GQ
Sbjct: 453 VQLTQATRPMRRLYIENLPHSASEKAIIDCLNGFLMSSGVNHIEGTQPCISCIIHKDRGQ 512

Query: 514 AFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDS 573
           A VEFLT EDASAAL  DG  FSGS LKI+RPK+++E                       
Sbjct: 513 ALVEFLTPEDASAALLFDGSDFSGSTLKIRRPKDYIET---------------------- 550

Query: 574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAG 633
                            + ++V AFG LKAYHFE+N+D   PCAF+EYVD+ V  KA AG
Sbjct: 551 -----------------LRDVVTAFGRLKAYHFEINDDLNGPCAFLEYVDESVVSKACAG 593

Query: 634 LNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGF 693
           LNG+K+GGQVL    AV    + + +G  P +GIP+H  PLL++P+ VLK+ NVFN +  
Sbjct: 594 LNGMKIGGQVLKVFPAV-PFPLTERTGCQPCYGIPEHVKPLLQRPSVVLKINNVFNADVL 652

Query: 694 SSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLT 753
             LSE +++EVLED+R ECARFG+VKSVN VK        I A E  +  +      ++T
Sbjct: 653 PVLSESDIDEVLEDIRFECARFGTVKSVNFVK------PCISAEEEYKQIS------DIT 700

Query: 754 NDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEP--S 811
             + + K E  E  T   S  +N+LE  N + +   + + N  + N P +G   DE    
Sbjct: 701 --DVDIKHEIQENSTTVISRNSNDLEDNNANLDNCPS-DSNQKQANCPDNGRHQDEAVED 757

Query: 812 QLCELDTDMAVEYQARDS------TSEIVSQGVPTQVNTLKDSPCAH------DDKVTCN 859
           +LC++    A  ++  D       T  ++S+   +  N  +D+          D K+ C 
Sbjct: 758 KLCQMGNTDATCFEVADCENASERTGHVLSEQRSSPENDFQDAKVTEIIETGLDKKLVC- 816

Query: 860 IQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIF 919
                   E  SS   D   + +NG       ASN       AVE  + ++ D NQ  +F
Sbjct: 817 -------VEASSSMMADNEKKSLNGLDPVVRIASN-------AVEKSEKKDPDNNQESLF 862

Query: 920 EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
             G VFVE+ R EASCMAAHSLH R++D + +++EYIP  LYR RF K
Sbjct: 863 VLGSVFVEFGRIEASCMAAHSLHGRIYDGQEISIEYIPHGLYRKRFPK 910

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449498643|ref|XP_004160593.1| PREDICTED: uncharacterized LOC101213128 [Cucumis sativus]

 Score =  538 bits (1386), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 389/1016 (38%), Positives = 541/1016 (53%), Gaps = 147/1016 (14%)

Query: 1   MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSN 60
           M   G  K+   +  + + ++S++ SAARTRPFSF++IM+RRKTK  +  ++ DA     
Sbjct: 1   MSTHGCSKQYSRRSKKQTRSNSDDESAARTRPFSFEDIMLRRKTKGSAATVEVDATS--- 57

Query: 61  IPGDCTIENVSDDHKSGRHHGHKKSPGVDVHT---SEEYVKVGSGKKEDNALTKN---VD 114
                     +D+  S R   H K   +DV      EE  K  S +K++  + KN   V 
Sbjct: 58  ----------TDNRASERIFRHSKGSSLDVQNLSLEEESAKDSSRRKKEETVLKNNMVVR 107

Query: 115 SSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADV 174
           S R        L +KLK        H R    E     R    ++  G   +D   + D+
Sbjct: 108 SDRNNYESGLSLMSKLK--------HDRNENDE-----RQKYGQESLGWGKNDQSCRIDI 154

Query: 175 TKETSSKPN----VKSEKLIPSQGRSHNQSIV------DSRDEATKKHSRDLT------G 218
             ET+ + +     K  +   S+G S  +S        D R+  +K+ S+++       G
Sbjct: 155 ETETAKRHSRDTACKDRRQDHSRGESEKESKRKPQNGEDDRNRDSKRKSQNVDDEINKDG 214

Query: 219 KDRHADKSGEKSE-------RESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEK 271
            D     S  KS+       R+SKRK +N DD++NRDK  AKK D GK HDL+  ERKE 
Sbjct: 215 DDDRNRDSKRKSQNGDDDRNRDSKRKSQNGDDDRNRDKYIAKKHDHGKHHDLENRERKEA 274

Query: 272 KESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISS 331
             S  SR+ +SRLKRR+ RS +RE ++RRS+SLSPR+ K ++   R+ E LP  S    S
Sbjct: 275 VVSLTSRYEDSRLKRRQKRSPDRESKHRRSVSLSPRSHKHSTKLARQKE-LPLESHVKKS 333

Query: 332 GRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSA 391
           GR  SD + +    N  +  YRRH GSTSGLGGYSPRKRRTE+A KTPSP+ R+PE+K+ 
Sbjct: 334 GRWRSDSERTGDFTNTSNSQYRRHSGSTSGLGGYSPRKRRTESAVKTPSPL-RTPEEKNE 392

Query: 392 KWDVAPVETY-----SVPSNVHTSNQAASSN-AHEMVSSDPVTSTTQKPLAGISVSASLA 445
             D+ P E       SV SN   SN   S   +++       +S   K L+ +S +    
Sbjct: 393 VLDLPPTEKVGLFSGSVASNFPPSNPTVSLGISNDQSGGAFFSSAMGKSLSVVSSNNIAM 452

Query: 446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
           K  VS+D VQLTQ+ RPMRRL +ENLP SASEKA+++ LN FL+SSGV H+ G+ PCI C
Sbjct: 453 KTKVSLDLVQLTQATRPMRRLYIENLPHSASEKAIIDCLNGFLMSSGVNHIEGTQPCISC 512

Query: 506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
           +I +++GQA VEFLT EDASAAL  DG  FSGS LKI+RPK+++E               
Sbjct: 513 IIHKDRGQALVEFLTPEDASAALLFDGSDFSGSTLKIRRPKDYIET-------------- 558

Query: 566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQL 625
                                    + ++V AFG LKAYHFE+N+D   PCAF+EYVD+ 
Sbjct: 559 -------------------------LRDVVTAFGRLKAYHFEINDDLNGPCAFLEYVDES 593

Query: 626 VTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLK 685
           V  KA AGLNG+K+GGQVL    AV    + + +G  P +GIP+H  PLL++P+ VLK+ 
Sbjct: 594 VVSKACAGLNGMKIGGQVLKVFPAV-PFPLTERTGCQPCYGIPEHVKPLLQRPSVVLKIN 652

Query: 686 NVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTAS 745
           NVFN +    LSE +++EVLED+R ECARFG+VKSVN VK        I A E  +  + 
Sbjct: 653 NVFNADVLPVLSESDIDEVLEDIRFECARFGTVKSVNFVK------PCISAEEEYKQIS- 705

Query: 746 AGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGT 805
                ++T  + + K E  E  T   S  +N+LE  N + +   + + N  + N P +G 
Sbjct: 706 -----DIT--DVDIKHEIQENSTTVISRNSNDLEDNNANLDNCPS-DSNQKQANCPDNGR 757

Query: 806 MGDEP--SQLCELDTDMAVEYQARDS------TSEIVSQGVPTQVNTLKDSPCAH----- 852
             DE    +LC++    A  ++  D       T  ++S+   +  N  +D+         
Sbjct: 758 HQDEAVEDKLCQMGNTDATCFEVADCENASERTGHVLSEQRSSPENDFQDAKVTEIIETG 817

Query: 853 -DDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQ 911
            D K+ C         E  SS   D   + +NG       ASN       AVE  + ++ 
Sbjct: 818 LDKKLVC--------VEASSSMMADNEKKSLNGLDPVVRIASN-------AVEKSEKKDP 862

Query: 912 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
           D NQ  +F  G VFVE+ R EASCMAAHSLH R++D + +++EYIP  LYR RF K
Sbjct: 863 DNNQESLFVLGSVFVEFGRIEASCMAAHSLHGRIYDGQEISIEYIPHGLYRKRFPK 918

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536627|ref|XP_003536838.1| PREDICTED: uncharacterized protein LOC100810537 [Glycine max]

 Score =  503 bits (1295), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 331/777 (42%), Positives = 453/777 (58%), Gaps = 78/777 (10%)

Query: 203 DSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHD 262
           DS +   KKH R+ + KD+HA     K ERE+KRK++N DDE  +D++ ++K D  K H+
Sbjct: 25  DSEEVPEKKHYRE-SDKDKHAGGRA-KYERETKRKYKNGDDE-TQDRNTSRKQDAVKHHN 81

Query: 263 LKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGL 322
           + + ERKE++   KS   N  L  +R  SR RE  +RRS S SPR QKRT Y D E + L
Sbjct: 82  MHIYERKERRVKVKSH--NEELTAKRRCSRSREREDRRSPSFSPREQKRT-YQDGERKEL 138

Query: 323 PSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPI 382
             HS K SS  ++ DID +RV+ NG SGH+ RH  STSGLGGYSPRKR++EAAAKTPSP 
Sbjct: 139 SMHSLKDSSRTKNPDIDRNRVSTNGSSGHHHRHGVSTSGLGGYSPRKRKSEAAAKTPSPS 198

Query: 383 NRSPEKKSAKWDVAPVETYS----VPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGI 438
             S EKK A WD+ P  T +    V S+   SN A  SN H++VS+  +     KPL   
Sbjct: 199 KHSLEKKRAGWDLPPAGTNNPSAVVSSSFPVSNCAVLSNMHDVVSTSSLDLALVKPLPVS 258

Query: 439 SVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG 498
             S      N ++DSVQLTQ+ RP+RRL +ENLP SASEKA+M+  NN LLS+ V H+  
Sbjct: 259 FPSDVSTGKNTNIDSVQLTQATRPIRRLYLENLPASASEKAVMDCFNNLLLSARVNHIQQ 318

Query: 499 SLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEK 558
           + PCI C++ ++KGQA VEFLTA+DASAAL  DG    GSI+KI+RPK+++E+       
Sbjct: 319 AQPCICCILHKDKGQALVEFLTADDASAALSFDGSMLFGSIVKIRRPKDYIEL------- 371

Query: 559 SVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAF 618
                                            MEI   FG LKAYHFE   ++  PCAF
Sbjct: 372 ---------------------------------MEIAGVFGSLKAYHFETKVNNG-PCAF 397

Query: 619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKP 678
           +EYVD  VT KA AGLNG+K+GG+VLT +QA+ D S ++N+G    +G+P+HA PLL+KP
Sbjct: 398 LEYVDHSVTIKACAGLNGMKLGGEVLTVLQAMPDASPLENAGESLSYGVPEHAKPLLRKP 457

Query: 679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY--GDSNISTIQA 736
           T+VL++ NVF  +   SLS++ +EE+L+DVRLECARFG++KS+NVVK+  G++  + ++ 
Sbjct: 458 TQVLEINNVFAADTILSLSDMAIEEILDDVRLECARFGTIKSINVVKHSSGENLATKLEE 517

Query: 737 CEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIK-NNELEIL-NDSKEVMEAGEVN 794
           C+      +  V Q+ TN  TN       +   +   +  N +EI  N+  E ++  E +
Sbjct: 518 CKVINKVDAKEVSQD-TNCITNNTESSFSDKATYPDFEGTNGMEIHDNNEMEEVKVDEGS 576

Query: 795 NVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDD 854
            V  ++ A   + D  S    +D D AVE          + Q  P Q +T  D P  +D 
Sbjct: 577 CVYVDKNAE--VFDYKSCREHVD-DSAVEDVGDKGIPCSIIQECPDQQDTPNDGPEFYDK 633

Query: 855 KVTCNIQLEHMSEENKSSAKEDLNLE---EVNGNSEAFTGASNEMGMQSSAVENGDN-EN 910
            V  +I               D+N+E   E      AF    +E  + +  V    + + 
Sbjct: 634 MVANDI---------------DVNIENNMESKDTVCAFQEGFSEWDISAELVSPQKSIDT 678

Query: 911 QDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
           ++   GH+F+PG V VEY RAEA C AAHSLH R FD RIV V Y+ L+LYR+RF+K
Sbjct: 679 EEDIYGHVFKPGSVLVEYGRAEACCSAAHSLHGRFFDGRIVTVGYVALSLYRSRFTK 735

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218192051|gb|EEC74478.1| hypothetical protein OsI_09930 [Oryza sativa Indica Group]

 Score =  461 bits (1186), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 369/999 (36%), Positives = 522/999 (52%), Gaps = 102/999 (10%)

Query: 22   SNEGSAARTRPFSFDEIMIRRKTKNLSE--NIKEDAMDVSNIPGDCTIENVSDDHKSGRH 79
            +++G+AARTRP S  +IM RR+ K  SE    KE   + SN          S+  +SGR 
Sbjct: 179  TSDGTAARTRPLSIQDIMSRREKKTASEAKKTKEGLEENSN--------GKSNHLESGRG 230

Query: 80   HGHKKSP---GVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKL-KEDYV 135
               +K      ++    +   K G G K+D    ++     +R    RD++ ++ K+D +
Sbjct: 231  SKSRKDVREMPLEGSKKDNSDKPGEGSKKDE--MRHTPREERRKDNMRDMQREVSKKDNL 288

Query: 136  AKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETS-----SKPNVKSEKLI 190
                   +    +++K + P  +  R      ++ +   T++ S      K N  S KL 
Sbjct: 289  KDRPKDISKIDNLKVKVKVPSKDDQRDAPKKSSRKERSSTRDDSHLVDKDKGNHNSHKLS 348

Query: 191  P------SQGRSHNQSIVDSRD-EATKKHSRDLTGKDR-----HADKSGEKSER--ESKR 236
                    + R  N   + +RD +AT + S+   GK         D+  E+SER  + KR
Sbjct: 349  TYTSGQVGKSRGGNHGEITARDGDATIQESQKRPGKRWIDEPVGNDRIKERSERRTDGKR 408

Query: 237  KHRNRDDEKNR--DKSAAKKVDLGKGHDLKVSERKE-KKESPKSRHGNSRLKRRRSRSRE 293
            K R  DDEK+   D+   KK D  +  D +  +RK+ +KE+ K  H   R KRRRS SR+
Sbjct: 409  KSRGFDDEKSSQVDRPTLKKQDAVRLQDPRHFDRKDGRKENAKLHHEEPRSKRRRSTSRD 468

Query: 294  R-EDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNG--LSG 350
              ++R+ RS+S S R Q R SY    H+  P + +   S R+H + D  R + N    SG
Sbjct: 469  HYQERHDRSVSPSSREQ-RHSYRGHGHDYYPPYHSMDKSRRKHFETDRHRTSWNDGYSSG 527

Query: 351  HYRRHDGSTSGLGGYSPRKRRT-----EAAAKTPSPINRSPEKKSAKWDVAPVETYSVPS 405
             YRR++   S LGGYSPRKR+T     +   KT S + RSPEKKSA WD  PV T    S
Sbjct: 528  SYRRYE---SRLGGYSPRKRKTAPKDEQTTIKTASLVIRSPEKKSATWDQLPVATDL--S 582

Query: 406  NVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRR 465
            N  T+ Q+        V   PV  TT K     ++   L   N+++DSVQLTQ+ RP+RR
Sbjct: 583  NFVTTLQSTVGLKDSTV---PVNFTTSKQDPNTTIGTILTGSNLAVDSVQLTQATRPLRR 639

Query: 466  LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGS-LPCIGCVIQREKGQAFVEFLTAEDA 524
            L +ENLP  A+E  L+  LN FLLSS   H+  S  PC+ CVI ++K QAFVEFLT EDA
Sbjct: 640  LHIENLPSLATEDMLIGCLNEFLLSSSASHIQRSKQPCLSCVINKDKRQAFVEFLTPEDA 699

Query: 525  SAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISR 584
            +AAL  DG SF GS LKI+RPKE+VE+A    +K    +  +S +V DSPHKIFI GIS 
Sbjct: 700  TAALSFDGRSFGGSSLKIRRPKEYVEMAHVAPKKPSEEIKLISDVVADSPHKIFIAGISG 759

Query: 585  TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL 644
             +SS+M+MEIV +FGPL AY F  NED    CAF+EY+D  +T KA AGLNG+K+GG +L
Sbjct: 760  VISSEMLMEIVSSFGPLAAYRFLFNEDLGGACAFLEYIDHSITSKACAGLNGMKLGGGIL 819

Query: 645  TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEV 704
            TAV    + +    +   PF+GIP  A  LL++PT+VL+LKNVF+ E +  LS+ E+EE+
Sbjct: 820  TAVNVFPNSTEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEI 879

Query: 705  LEDVRLECARFGSVKSVNVVKYGDSNIS----TIQACE------------GNENTASAGV 748
            LEDVR+ECARFG+VKS+NVV+Y  S+ +    TI  CE            GN +    GV
Sbjct: 880  LEDVRVECARFGAVKSINVVEYPASSDNTTGDTITECEDGSTKIEPKEYGGNVSCTETGV 939

Query: 749  GQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGD 808
              ++ N  T+     + EV D   +  + +    D K +   GE +        + T GD
Sbjct: 940  ECSVLNQSTDVPDPSICEVQDPVELDTDSIPKGRDHKNLDTRGECD--------APTAGD 991

Query: 809  EPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEE 868
            E       +TD  VE    DST          Q +        H D    +++    +  
Sbjct: 992  E-------NTDQGVEADQTDSTD--------AQDDARGTIERGHADADQASLETSCSTAP 1036

Query: 869  NKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEY 928
               + K     E+  G      G S     ++ AV+  DN     +     E GC+ VE+
Sbjct: 1037 GDGADKSGRENEQQGG-----AGVSESNTEKAPAVDARDNALA--SNTSALEAGCILVEF 1089

Query: 929  MRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
            +R EA+C AAHSLH R F  RIV+  Y P +LY  ++++
Sbjct: 1090 LRKEAACTAAHSLHGRRFGSRIVSAGYAPHDLYLQKYTR 1128

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147852616|emb|CAN81690.1| hypothetical protein VITISV_009755 [Vitis vinifera]

 Score =  459 bits (1182), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 298/565 (52%), Positives = 366/565 (64%), Gaps = 50/565 (8%)

Query: 1   MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSN 60
           M RS R KEK+GK  E  L +  EG+AARTRPFSFDEIM+RRK K L  ++K+ A +  N
Sbjct: 1   MSRSNRPKEKYGKSTELYLDNFKEGTAARTRPFSFDEIMLRRKNKKLYGDVKDGAGEEGN 60

Query: 61  IPGDCTIENVSDDHKS--GRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQ 118
           I     ++NVSD ++S  G  H     PG   H+SE++VKV S KK++N   K  +  + 
Sbjct: 61  ISRKDIVKNVSDCYESDKGYKHNEDSFPGAINHSSEDFVKVSSRKKDENTSMKEGNLGKV 120

Query: 119 RDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKET 178
           +D E+ + E KLK    AK N                             K   D +KE 
Sbjct: 121 KDKESHNSEDKLK----AKPN-----------------------------KGMTDKSKEG 147

Query: 179 SSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKH 238
                V   K I  + R  +     S  E  KK SRD  GKDR+AD+S  KSE+ESKRKH
Sbjct: 148 KINQRVHGRKKIDERSRRSSDD---SESEPEKKFSRDSVGKDRYADRS-RKSEKESKRKH 203

Query: 239 RNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSRERE-DR 297
           R  +DEKNR++++ KK D GK H+ +  +RKE++ESP SR+  SR KRRRSRSRER+ DR
Sbjct: 204 RTGEDEKNRERNSMKKHDPGKRHESEFLDRKERRESPPSRYEESRPKRRRSRSRERDKDR 263

Query: 298 NRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDG 357
           ++RS SLSPRAQKRTS++ REH  L SHS K  SGRQHSD D +R++ NG S H+RRH G
Sbjct: 264 DKRSSSLSPRAQKRTSHHGREHAELSSHSLKDRSGRQHSDADRNRISNNGSSSHFRRHGG 323

Query: 358 STSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVET-----YSVPSNVHTSNQ 412
           S SGLGGYSPRKRRTEAA KTPSP NRSPEKK+A WD+ P  T      SV S++     
Sbjct: 324 SASGLGGYSPRKRRTEAAIKTPSPTNRSPEKKNAGWDLPPSRTDGMNAGSVLSSLQVLKP 383

Query: 413 AASSNAHEMVS----SDPVTSTTQK-PLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLC 467
             SSNA E+ S    + PVT+TT K PL  I   A     NVS+DS+QLTQ+ RPMRRL 
Sbjct: 384 TVSSNADELPSAVPVAVPVTATTAKPPLPRIYSDAVSKNKNVSIDSIQLTQATRPMRRLY 443

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           VENLP+S+SEKALME LNNFLLSSG+ HV G+ PCI C+I +EKGQA VEFLT EDASAA
Sbjct: 444 VENLPVSSSEKALMECLNNFLLSSGINHVQGTPPCISCIIHKEKGQALVEFLTPEDASAA 503

Query: 528 LCCDGCSFSGSILKIKRPKEFVEVA 552
           L  DG SFSGSILKI+RPK+FV++ 
Sbjct: 504 LSFDGISFSGSILKIRRPKDFVDMV 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108706080|gb|ABF93875.1| RNA recognition motif family protein, expressed [Oryza sativa Japonica Group]

 Score =  456 bits (1174), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 369/999 (36%), Positives = 520/999 (52%), Gaps = 102/999 (10%)

Query: 22  SNEGSAARTRPFSFDEIMIRRKTKNLSE--NIKEDAMDVSNIPGDCTIENVSDDHKSGRH 79
           +++G+AARTRP S  +IM RR+ K  SE    KE   + SN          S+  +SGR 
Sbjct: 15  TSDGTAARTRPLSIQDIMSRREKKTASEAKKTKEGLEENSN--------GKSNHLESGRG 66

Query: 80  HGHKKSP---GVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKL-KEDYV 135
              +K      ++    +   K G G K+D    ++     +R    RD++ ++ K+D +
Sbjct: 67  SKSRKDVREMPLEGSKKDNSDKPGEGSKKDE--MRHTPREERRKDNMRDMQREVSKKDNL 124

Query: 136 AKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETS-----SKPNVKSEKLI 190
                  +    +++K + P  +  R      +K +   T++ S      K N  S KL 
Sbjct: 125 KDRPKDISKIDNLKVKVKVPSKDDQRDAPKKSSKKERSSTRDDSHLVDKDKGNHNSHKLS 184

Query: 191 P------SQGRSHNQSIVDSRD-EATKKHSRDLTGKDR-----HADKSGEKSER--ESKR 236
                   + R  N   + +RD +AT + S+   GK         D+  E+SER  + KR
Sbjct: 185 TYTSGRVGKSRGGNHGEITARDGDATIQESQKRPGKRWIDEPVGNDRIKERSERRTDGKR 244

Query: 237 KHRNRDDEKNR--DKSAAKKVDLGKGHDLKVSERKE-KKESPKSRHGNSRLKRRRSRSRE 293
             R  DDEK+   D+   KK D  +  D +  +RK+ +KE+ K  H   R KRRRS SR+
Sbjct: 245 NSRGFDDEKSSQVDRPTLKKQDAVRLQDPRHFDRKDGRKENAKLHHEEPRSKRRRSTSRD 304

Query: 294 R-EDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNG--LSG 350
             ++R+ RS+S S R Q R SY    H+  P + +   S R+H + D  R + N    SG
Sbjct: 305 HYQERHDRSVSPSSREQ-RHSYRGHGHDYYPPYHSMDKSRRKHFETDRHRTSWNDGYSSG 363

Query: 351 HYRRHDGSTSGLGGYSPRKRRT-----EAAAKTPSPINRSPEKKSAKWDVAPVETYSVPS 405
            YRR++   S LGGYSPRKR+T     +   KT S + RSPEKKSA WD  PV T    S
Sbjct: 364 SYRRYE---SRLGGYSPRKRKTAPKDEQTTIKTASLVIRSPEKKSATWDQLPVATDL--S 418

Query: 406 NVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRR 465
           N  T+ Q+        V   PV  TT K     ++   L   N+++DSVQLTQ+ RP+RR
Sbjct: 419 NFVTTLQSTVGLKDSTV---PVNFTTSKQDPNTTIGTILTGSNLAVDSVQLTQATRPLRR 475

Query: 466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGS-LPCIGCVIQREKGQAFVEFLTAEDA 524
           L +ENLP  A+E  L+  LN FLLSS   H+  S  PC+ CVI ++K QAFVEFLT EDA
Sbjct: 476 LHIENLPSLATEDMLIGCLNEFLLSSSASHIQRSKQPCLSCVINKDKRQAFVEFLTPEDA 535

Query: 525 SAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISR 584
           +AAL  DG SF GS LKI+RPKE+VE+A    +K    +  +S +V DSPHKIFI GIS 
Sbjct: 536 TAALSFDGRSFGGSSLKIRRPKEYVEMAHVAPKKPSEEIKLISDVVADSPHKIFIAGISG 595

Query: 585 TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL 644
            +SS+M+MEIV +FGPL AY F  NE     CAF+EY+D  +T KA AGLNG+K+GG +L
Sbjct: 596 VISSEMLMEIVSSFGPLAAYRFLFNEYLGGACAFLEYIDHSITSKACAGLNGMKLGGGIL 655

Query: 645 TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEV 704
           TAV    + +    +   PF+GIP  A  LL++PT+VL+LKNVF+ E +  LS+ E+EE+
Sbjct: 656 TAVNVFPNSTEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEI 715

Query: 705 LEDVRLECARFGSVKSVNVVKYGDSNIS----TIQACE------------GNENTASAGV 748
           LEDVR+ECARFG+VKS+NVVKY  S+ +    TI  CE            GN +    GV
Sbjct: 716 LEDVRVECARFGAVKSINVVKYPASSDNTTGDTITECEDGSTKIEPKEYGGNVSCTETGV 775

Query: 749 GQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGD 808
             ++ N  T+     + EV D   +  + +    D K +   GE +        + T GD
Sbjct: 776 ECSVLNQSTDVPDPSICEVQDPVELDTDSIPKGRDHKNLDTRGECD--------APTAGD 827

Query: 809 EPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEE 868
           E       +TD  VE    DST          Q +        H D    +++    +  
Sbjct: 828 E-------NTDQGVEADQTDSTD--------AQDDARGTIERGHADADPASLETSCSTAP 872

Query: 869 NKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEY 928
              + K     E+  G      G S     ++ AV+  DN     +     E GC+ VE+
Sbjct: 873 GDGADKSGRENEQQGG-----AGVSESNTEKAPAVDARDNALA--SNTSALEAGCILVEF 925

Query: 929 MRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 967
           +R EA+C+AAHSLH R F  RIV+  Y P +LY  ++ +
Sbjct: 926 LRKEAACIAAHSLHGRRFGSRIVSAGYAPHDLYLQKYPR 964

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	967
TAIR|locus:1005716652	979	AT2G33435 [Arabidopsis thalian	0.249	0.246	0.493	1.1e-59
FB|FBgn0005411	416	U2af50 "U2 small nuclear ribop	0.268	0.625	0.318	9.4e-40
UNIPROTKB|E2R0G3	471	U2AF2 "Uncharacterized protein	0.384	0.789	0.290	1.4e-36
UNIPROTKB|P26368	475	U2AF2 "Splicing factor U2AF 65	0.383	0.781	0.294	3.6e-34
MGI|MGI:98886	475	U2af2 "U2 small nuclear ribonu	0.384	0.783	0.290	3.6e-34
RGD|1597319	475	LOC690372 "similar to U2 (RNU2	0.384	0.783	0.290	3.6e-34
UNIPROTKB|Q24JZ8	475	U2AF2 "Uncharacterized protein	0.384	0.783	0.290	9.8e-34
ZFIN|ZDB-GENE-040426-1881	475	u2af2b "U2 small nuclear RNA a	0.348	0.709	0.297	5.2e-33
WB|WBGene00006697	496	uaf-1 [Caenorhabditis elegans	0.265	0.518	0.314	3.9e-32
ZFIN|ZDB-GENE-050706-131	470	u2af2a "U2 small nuclear RNA a	0.332	0.685	0.300	5.8e-32

TAIR|locus:1005716652 AT2G33435 [Arabidopsis thaliana (taxid:3702)]

 Score = 548 (198.0 bits), Expect = 1.1e-59, Sum P(2) = 1.1e-59
 Identities = 122/247 (49%), Positives = 157/247 (63%)

Query:   306 PRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGY 365
             PRA+K TS + R HE    +  K  SG+ H + +  +VT   +S   RR+  S S LGGY
Sbjct:   720 PRAEKATSRHKRNHEERSENVVKDRSGKHHCNDNEDKVTST-VSNKSRRYSASKSELGGY 778

Query:   366 SPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSN-VHTSNQAASSNAHEMVSS 424
             SPRKRR +A+ K  SP N S EKKSAKW +A   T  + S+ V +  QAA+  A+  +S 
Sbjct:   779 SPRKRREQASTKAASPPNLSSEKKSAKWGLAATVTAGMFSDSVFSGLQAATQTAYPTISE 838

Query:   425 DPVTSTTQKPLAGISVSASL--AKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALME 482
                + T  KPL  +        A+   S DSVQLT+S R MRRL  EN+P SASEK+L+E
Sbjct:   839 --ASLTLLKPLMVMDAPFRTPPARQTTSFDSVQLTESTRRMRRLYAENVPDSASEKSLIE 896

Query:   483 FLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI 542
               N ++LSSG  H+ GS PCI C+I +EK QA VEFLT +DASAAL  DGCSF+GS LKI
Sbjct:   897 CFNGYMLSSGSNHIKGSEPCISCIINKEKSQALVEFLTPQDASAALSLDGCSFAGSNLKI 956

Query:   543 KRPKEFV 549
             +RPK++V
Sbjct:   957 RRPKDYV 963

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

FB|FBgn0005411 U2af50 "U2 small nuclear riboprotein auxiliary factor 50" [Drosophila melanogaster (taxid:7227)]

 Score = 330 (121.2 bits), Expect = 9.4e-40, Sum P(4) = 9.4e-40
 Identities = 87/273 (31%), Positives = 138/273 (50%)

Query:   461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
             R  RRL V N+P   +E+ +MEF N  +   G+    GS P + C I  +K  AF+EF +
Sbjct:    90 RQARRLYVGNIPFGVTEEEMMEFFNQQMHLVGLAQAAGS-PVLACQINLDKNFAFLEFRS 148

Query:   521 AEDASAALCCDGCSFSGSILKIKRPKEFVE---VASGEAEK-SVASVDSVSGIVKDSPHK 576
              ++ + A+  DG +  G  LKI+RP ++     +    A K +V S   +S +V DSPHK
Sbjct:   149 IDETTQAMAFDGINLKGQSLKIRRPHDYQPMPGITDTPAIKPAVVSSGVISTVVPDSPHK 208

Query:   577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGL 634
             IFIGG+   L+   V E++ +FG L+A++   +      +  AF EYVD  +T ++IAGL
Sbjct:   209 IFIGGLPNYLNDDQVKELLLSFGKLRAFNLVKDAATGLSKGYAFCEYVDLSITDQSIAGL 268

Query:   635 NGLKVGGQVLTAVQAVLDGSIMDNSGNPP---FHGIPKHALPLLK-KPTEVLKLKNVFNP 690
             NG+++G + L   +A +      N+ N        +P  +  +    PTEVL L N+  P
Sbjct:   269 NGMQLGDKKLIVQRASVGAKNAQNAANTTQSVMLQVPGLSNVVTSGPPTEVLCLLNMVTP 328

Query:   691 EGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
             +                    C ++G V+SV +
Sbjct:   329 DELRDEEEYEDILEDIKEE--CTKYGVVRSVEI 359

GO:0000398 "mRNA splicing, via spliceosome" evidence=IC;ISS;NAS;IMP

GO:0005686 "U2 snRNP" evidence=TAS

GO:0008187 "poly-pyrimidine tract binding" evidence=NAS;IDA

GO:0005681 "spliceosomal complex" evidence=ISS;NAS

GO:0000245 "spliceosomal complex assembly" evidence=NAS

GO:0046982 "protein heterodimerization activity" evidence=NAS

GO:0005634 "nucleus" evidence=IC;NAS

GO:0003729 "mRNA binding" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0051168 "nuclear export" evidence=IMP

GO:0000381 "regulation of alternative mRNA splicing, via spliceosome" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0071011 "precatalytic spliceosome" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008380 "RNA splicing" evidence=IMP

GO:0003723 "RNA binding" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|E2R0G3 U2AF2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 344 (126.2 bits), Expect = 1.4e-36, Sum P(3) = 1.4e-36
 Identities = 118/406 (29%), Positives = 183/406 (45%)

Query:   333 RQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP---EKK 389
             R HS   S        S   R  D  ++        K  T  A +    + RSP   +KK
Sbjct:    27 RSHSRSRSRDRKRRSRSRDRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKK 86

Query:   390 SAK--WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKPLAGISVSASLA 445
               +  WDV P      P   H +       A +     P T+   T  P  G++V+ +  
Sbjct:    87 KVRKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP-DGLAVTPT-- 135

Query:   446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
                V +   Q+T   R  RRL V N+P   +E+A+M+F N  +   G+    G+ P +  
Sbjct:   136 --PVPVVGSQMT---RQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAV 189

Query:   506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +       SV     
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGV 249

Query:   566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD 623
             VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD
Sbjct:   250 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 309

Query:   624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDG--SIMDNSGNPPFH----GIPKHALPLLKK 677
               VT +AIAGLNG+++G + L   +A +    + +      P      G+    + +   
Sbjct:   310 INVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLSTINQTPVTLQVPGLMSSQVQMGGH 369

Query:   678 PTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
             PTEVL L N+  PE                    C+++G VKS+ +
Sbjct:   370 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDE--CSKYGLVKSIEI 413

GO:0006397 "mRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P26368 U2AF2 "Splicing factor U2AF 65 kDa subunit" [Homo sapiens (taxid:9606)]

 Score = 338 (124.0 bits), Expect = 3.6e-34, Sum P(3) = 3.6e-34
 Identities = 121/411 (29%), Positives = 184/411 (44%)

Query:   333 RQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP---EKK 389
             R HS   S        S   R  D  ++        K  T  A +    + RSP   +KK
Sbjct:    27 RSHSRSRSRDRKRRSRSRDRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKK 86

Query:   390 SAK--WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKPLAGISVSASLA 445
               +  WDV P      P   H +       A +     P T+   T  P  G++V+ +  
Sbjct:    87 KVRKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP-DGLAVTPT-- 135

Query:   446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
                V +   Q+T   R  RRL V N+P   +E+A+M+F N  +   G+    G+ P +  
Sbjct:   136 --PVPVVGSQMT---RQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAV 189

Query:   506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +       SV     
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGV 249

Query:   566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD 623
             VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD
Sbjct:   250 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 309

Query:   624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPP-----------FHGIPKHAL 672
               VT +AIAGLNG+++G + L  VQ    G+      +PP             G+    +
Sbjct:   310 INVTDQAIAGLNGMQLGDKKLL-VQRASVGAKNATLVSPPSTINQTPVTLQVPGLMSSQV 368

Query:   673 PLLKKPTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
              +   PTEVL L N+  PE                    C+++G VKS+ +
Sbjct:   369 QMGGHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDE--CSKYGLVKSIEI 417

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0070742 "C2H2 zinc finger domain binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0019899 "enzyme binding" evidence=IPI

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IDA

GO:0006397 "mRNA processing" evidence=TAS

GO:0000398 "mRNA splicing, via spliceosome" evidence=IC;TAS

GO:0005681 "spliceosomal complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0006369 "termination of RNA polymerase II transcription" evidence=TAS

GO:0006406 "mRNA export from nucleus" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0031124 "mRNA 3'-end processing" evidence=TAS

MGI|MGI:98886 U2af2 "U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2" [Mus musculus (taxid:10090)]

 Score = 338 (124.0 bits), Expect = 3.6e-34, Sum P(3) = 3.6e-34
 Identities = 119/410 (29%), Positives = 183/410 (44%)

Query:   333 RQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP---EKK 389
             R HS   S        S   R  D  ++        K  T  A +    + RSP   +KK
Sbjct:    27 RSHSRSRSRDRKRRSRSRDRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKK 86

Query:   390 SAK--WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKPLAGISVSASLA 445
               +  WDV P      P   H +       A +     P T+   T  P  G++V+ +  
Sbjct:    87 KVRKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP-DGLAVTPT-- 135

Query:   446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
                V +   Q+T   R  RRL V N+P   +E+A+M+F N  +   G+    G+ P +  
Sbjct:   136 --PVPVVGSQMT---RQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAV 189

Query:   506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +       SV     
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGV 249

Query:   566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD 623
             VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD
Sbjct:   250 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 309

Query:   624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDG------SIMDNSGNPPFH----GIPKHALP 673
               VT +AIAGLNG+++G + L   +A +        S+       P      G+    + 
Sbjct:   310 INVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSLPSTINQTPVTLQVPGLMSSQVQ 369

Query:   674 LLKKPTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
             +   PTEVL L N+  PE                    C+++G VKS+ +
Sbjct:   370 MGGHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDE--CSKYGLVKSIEI 417

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IDA

GO:0016607 "nuclear speck" evidence=TAS

GO:0019899 "enzyme binding" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=ISO

GO:0070742 "C2H2 zinc finger domain binding" evidence=IPI

RGD|1597319 LOC690372 "similar to U2 (RNU2) small nuclear RNA auxiliary factor 2 isoform b" [Rattus norvegicus (taxid:10116)]

 Score = 338 (124.0 bits), Expect = 3.6e-34, Sum P(3) = 3.6e-34
 Identities = 119/410 (29%), Positives = 183/410 (44%)

Query:   333 RQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP---EKK 389
             R HS   S        S   R  D  ++        K  T  A +    + RSP   +KK
Sbjct:    27 RSHSRSRSRDRKRRSRSRDRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKK 86

Query:   390 SAK--WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKPLAGISVSASLA 445
               +  WDV P      P   H +       A +     P T+   T  P  G++V+ +  
Sbjct:    87 KVRKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP-DGLAVTPT-- 135

Query:   446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
                V +   Q+T   R  RRL V N+P   +E+A+M+F N  +   G+    G+ P +  
Sbjct:   136 --PVPVVGSQMT---RQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAV 189

Query:   506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +       SV     
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGV 249

Query:   566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD 623
             VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD
Sbjct:   250 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 309

Query:   624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDG------SIMDNSGNPPFH----GIPKHALP 673
               VT +AIAGLNG+++G + L   +A +        S+       P      G+    + 
Sbjct:   310 INVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSLPSTINQTPVTLQVPGLMSSQVQ 369

Query:   674 LLKKPTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
             +   PTEVL L N+  PE                    C+++G VKS+ +
Sbjct:   370 MGGHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDE--CSKYGLVKSIEI 417

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0070742 "C2H2 zinc finger domain binding" evidence=IEA

UNIPROTKB|Q24JZ8 U2AF2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 336 (123.3 bits), Expect = 9.8e-34, Sum P(3) = 9.8e-34
 Identities = 119/410 (29%), Positives = 182/410 (44%)

Query:   333 RQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP---EKK 389
             R HS   S        S   R  D  ++        K  T  A +    + RSP   +KK
Sbjct:    27 RSHSRSRSRDRKRRSRSRDRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKK 86

Query:   390 SAK--WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKPLAGISVSASLA 445
               +  WDV P      P   H +       A +     P T+   T  P  G++V+ +  
Sbjct:    87 KVRKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP-DGLAVTPT-- 135

Query:   446 KLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC 505
                V +   Q+T   R  RRL V N+P   +E+A+M+F N  +   G+    G+ P +  
Sbjct:   136 --PVPVVGSQMT---RQARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAV 189

Query:   506 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +       SV     
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGV 249

Query:   566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD 623
             VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD
Sbjct:   250 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD 309

Query:   624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDG------SIMDNSGNPPFH----GIPKHALP 673
               VT +AIAGLNG+++G + L   +A +        S +      P      G+    + 
Sbjct:   310 INVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSPLSTINQTPVTLQVPGLMSSQVQ 369

Query:   674 LLKKPTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKSVNV 723
             +   PTEVL L N+  PE                    C ++G VKS+ +
Sbjct:   370 MGGHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDE--CGKYGLVKSIEI 417

GO:0070742 "C2H2 zinc finger domain binding" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0019899 "enzyme binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040426-1881 u2af2b "U2 small nuclear RNA auxiliary factor 2b" [Danio rerio (taxid:7955)]

 Score = 336 (123.3 bits), Expect = 5.2e-33, Sum P(3) = 5.2e-33
 Identities = 111/373 (29%), Positives = 178/373 (47%)

Query:   368 RKRRTEAAAKTPSP-INRSP---EKKSAK--WDVAPVETYSVPSNVHTSNQAASSNAHEM 421
             R RR++     P   ++RSP   +KK  K  WDV P      P   H +       A + 
Sbjct:    64 RHRRSDHTQNHPQENVSRSPHREKKKKIKKYWDVPP------PGFEHITPM--QYKAMQA 115

Query:   422 VSSDPVTST--TQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKA 479
                 P T+   T  P  G++V+ +     V +   Q+T   R  RRL V N+P   +E++
Sbjct:   116 AGQIPATALLPTMTP-DGLAVTPT----PVPVVGSQMT---RQARRLYVGNIPFGITEES 167

Query:   480 LMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI 539
             +M+F N  +   G+    G+ P +   I ++K  AF+EF + ++ + A+  DG  F    
Sbjct:   168 MMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQAQS 226

Query:   540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFG 599
             LKI+RP ++  +       SV     VS +V DS HK+FIGG+   L+   V E++ +FG
Sbjct:   227 LKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSIHKLFIGGLPNYLNDDQVKELLTSFG 286

Query:   600 PLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG--SI 655
             PLKA++   +      +  AF EYVD  V  +AIAGLNG+++  + L   +A +    + 
Sbjct:   287 PLKAFNLVKDSATGLSKGYAFCEYVDVNVNDQAIAGLNGMQLADKKLLVQRASVGAKNAT 346

Query:   656 MDNSGNPPFH-GIPK-HALPLLKK---PTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXX 710
             M +    P    +P   + P+++    PTEVL L N+  PE                   
Sbjct:   347 MTSINETPVTLQVPGLTSNPMIQMGGIPTEVLCLMNMVAPEELIDDEEYEEIVEDVKEE- 405

Query:   711 XCARFGSVKSVNV 723
              C+++G VKS+ +
Sbjct:   406 -CSKYGQVKSIEI 417

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

WB|WBGene00006697 uaf-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 325 (119.5 bits), Expect = 3.9e-32, Sum P(4) = 3.9e-32
 Identities = 85/270 (31%), Positives = 142/270 (52%)

Query:   464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
             RRL V N+P   +E+A+++F N  +   G+    G+ P + C I  +K  AF+EF + ++
Sbjct:   184 RRLYVGNIPFGCNEEAMLDFFNQQMHLCGLAQAPGN-PILLCQINLDKNFAFIEFRSIDE 242

Query:   524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
              +A +  DG +F G  LK++RP+++      +    + S   VS IV DS +KIFIGG+ 
Sbjct:   243 TTAGMAFDGINFMGQQLKVRRPRDY---QPSQNTFDMNSRMPVSTIVVDSANKIFIGGLP 299

Query:   584 RTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ 642
               L+   V E++C+FGPLKA+   V+ + + +  AF EY+D  +T +AIAGLNG+++G +
Sbjct:   300 NYLTEDQVKELLCSFGPLKAFSLNVDSQGNSKGYAFAEYLDPTLTDQAIAGLNGMQLGDK 359

Query:   643 VLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLK---KPTEVLKLKNVFNPEGFXXXXXX 699
              L  VQ         N+ N P        + L +   + TE+L L N+   +        
Sbjct:   360 QLV-VQLACANQQRHNT-NLPNSASAIAGIDLSQGAGRATEILCLMNMVTEDELKADDEY 417

Query:   700 XXXXXXXXXXXXCARFGSVKSVNVVK-YGD 728
                         C+++G V+S+ + + Y D
Sbjct:   418 EEILEDVRDE--CSKYGIVRSLEIPRPYED 445

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0042127 "regulation of cell proliferation" evidence=IMP

GO:0040020 "regulation of meiosis" evidence=IMP

GO:0040022 "feminization of hermaphroditic germ-line" evidence=IMP

GO:0007281 "germ cell development" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISS

GO:0009790 "embryo development" evidence=IMP

GO:0005681 "spliceosomal complex" evidence=ISS

GO:0030628 "pre-mRNA 3'-splice site binding" evidence=IDA

GO:0048589 "developmental growth" evidence=IMP

GO:0010172 "embryonic body morphogenesis" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

ZFIN|ZDB-GENE-050706-131 u2af2a "U2 small nuclear RNA auxiliary factor 2a" [Danio rerio (taxid:7955)]

 Score = 324 (119.1 bits), Expect = 5.8e-32, Sum P(3) = 5.8e-32
 Identities = 109/363 (30%), Positives = 171/363 (47%)

Query:   383 NRSP--EKKSAK----WDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTST--TQKP 434
             +RSP  EKK  K    WDV P      P   H +       A +     P T+   T  P
Sbjct:    69 SRSPHREKKKIKVKKYWDVPP------PGFEHITPM--QYKAMQAAGQIPATALLPTMTP 120

Query:   435 LAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ 494
               G++V+ +     V +   Q+T   R  RRL V N+P   +E+++M+F N  +   G+ 
Sbjct:   121 -EGLAVTPT----PVPVVGSQMT---RQARRLYVGNIPFGITEESMMDFFNAQMRLGGLT 172

Query:   495 HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASG 554
                G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +   
Sbjct:   173 QAPGN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGM 231

Query:   555 EAEKSV-----ASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN 609
                 SV       V  VS +V DS HK+FIGG+   L+   V E++ +FGPLKA++   +
Sbjct:   232 SENPSVYVPGSLPVGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD 291

Query:   610 EDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSG---NPPF 664
                   +  AF EYVD  ++ +AIAGLNG+++G + L   +A +       +G    P  
Sbjct:   292 SATGLSKGYAFCEYVDVNISDQAIAGLNGMQLGDKKLLVQRASVGSKNTTLTGINQTPVT 351

Query:   665 HGIPKHALPLLKK----PTEVLKLKNVFNPEGFXXXXXXXXXXXXXXXXXXCARFGSVKS 720
               +P      + +    PTEVL L N+  PE                    C+++G VKS
Sbjct:   352 LQVPGLMNSSVNQMGGIPTEVLCLMNMVAPEELLDDEEYEEIVEDVRDE--CSKYGQVKS 409

Query:   721 VNV 723
             + +
Sbjct:   410 IEI 412

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0046660 "female sex differentiation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	967
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	9e-43
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	4e-24
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	1e-18
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	1e-06
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	1e-06
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-06
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	5e-06
smart00360	73	smart00360, RRM, RNA recognition motif	5e-06
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	8e-06
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	1e-05
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-05
smart00360	73	smart00360, RRM, RNA recognition motif	3e-05
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	5e-05
cd12285	85	cd12285, RRM3_RBM39_like, RNA recognition motif 3	6e-05
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	6e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-05
cd12286	92	cd12286, RRM_Man1, RNA recognition motif in inner	7e-05
cd12416	98	cd12416, RRM4_RBM28_like, RNA recognition motif 4	1e-04
cd12615	74	cd12615, RRM1_TIA1, RNA recognition motif 1 in nuc	2e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	4e-04
cd12616	81	cd12616, RRM1_TIAR, RNA recognition motif 1 in nuc	4e-04
cd12282	91	cd12282, RRM2_TatSF1_like, RNA recognition motif 2	5e-04
cd12409	84	cd12409, RRM1_RRT5, RNA recognition motif 1 in yea	8e-04
cd12465	88	cd12465, RRM_UHMK1, RNA recognition motif found in	9e-04
PHA03307	1352	PHA03307, PHA03307, transcriptional regulator ICP4	0.001
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	0.002
cd12567	79	cd12567, RRM3_RBM19, RNA recognition motif 3 in RN	0.002
cd12446	84	cd12446, RRM_RBM25, RNA recognition motif in eukar	0.002
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	0.003
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	0.003
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	0.004
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	0.004
cd12239	82	cd12239, RRM2_RBM40_like, RNA recognition motif 2	0.004

>gnl|CDD|233503 TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, large subunit, splicing factor

 Score =  163 bits (414), Expect = 9e-43
 Identities = 127/478 (26%), Positives = 202/478 (42%), Gaps = 51/478 (10%)

Query: 267 ERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHS 326
           ER++ +   + R      +R R RSR R DR+RRS   S R   R     R     P   
Sbjct: 8   EREKSRGRDRDRSSERPRRRSRDRSRFR-DRHRRSRERSYREDSRPRDRRRYDSRSPRSL 66

Query: 327 TKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSP 386
              S  R          +   +  H RR             R R       +PS   R  
Sbjct: 67  RYSSVRRSRDRPRRRSRSVRSIEQHRRRL------------RDR-------SPSNQWRKD 107

Query: 387 EKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAK 446
           +KK + WD+ P     V ++   ++Q  S       +  P  +  +K LA  S+   L  
Sbjct: 108 DKKRSLWDIKPPGYELVTADQAKASQVFSVPG---TAPRPAMTDPEKLLAEGSIITPLPV 164

Query: 447 LNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV 506
           L          Q+ R  RRL V  +P    E+A+++F N+ L+ +   H       +  V
Sbjct: 165 LPYQ------QQATRQARRLYVGGIPPEFVEEAVVDFFND-LMIATGYHKAEDGKHVSSV 217

Query: 507 -IQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKS------ 559
            I +EK  AF+EF T E+A+ A+  D   +S   LKI+RP +++ V     E S      
Sbjct: 218 NINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDD 277

Query: 560 ---VASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEE 614
                     S  V DS  +I+IG +   L    + E++ +FG LKA++   ++     +
Sbjct: 278 NAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSK 337

Query: 615 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT---AVQAVLDGSIMDNSGNPPF----HGI 667
             AF EY D  VT  AIA LNG   G   L    A       +I  ++G  P       +
Sbjct: 338 GYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKAL 397

Query: 668 PKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 725
            +  L +  KPT+V++L N+   +    + + E EE+ EDV+ E +++G + ++ + +
Sbjct: 398 SQSILQIGGKPTKVVQLTNLVTGDDL--MDDEEYEEIYEDVKTEFSKYGPLINIVIPR 453

These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi. Length = 509

>gnl|CDD|240676 cd12230, RRM1_U2AF65, RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 96.8 bits (242), Expect = 4e-24
 Identities = 38/83 (45%), Positives = 51/83 (61%), Gaps = 1/83 (1%)

Query: 463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAE 522
            RRL V NLP   +E+ L++F N  +L++G+    G+ P +   I  EK  AFVEF T E
Sbjct: 1   ARRLYVGNLPPGITEEELVDFFNQAMLAAGLNQAPGN-PVLSVQINPEKNFAFVEFRTVE 59

Query: 523 DASAALCCDGCSFSGSILKIKRP 545
           +A+AAL  DG  F G  LKI+RP
Sbjct: 60  EATAALALDGIIFKGQPLKIRRP 82

The subfamily corresponds to the RRM1 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 82

>gnl|CDD|240677 cd12231, RRM2_U2AF65, RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 80.4 bits (199), Expect = 1e-18
 Identities = 35/77 (45%), Positives = 49/77 (63%), Gaps = 5/77 (6%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC---AFIEYVDQLVTPKAI 631
           +KIFIGG+   LS   V E++ +FG LKA++  V +         AF EY+D  VT +AI
Sbjct: 1   NKIFIGGLPNYLSEDQVKELLESFGKLKAFNL-VKDSATGLSKGYAFCEYLDPSVTDQAI 59

Query: 632 AGLNGLKVGGQVLTAVQ 648
           AGLNG+++G + LT VQ
Sbjct: 60  AGLNGMQLGDKKLT-VQ 75

This subfamily corresponds to the RRM2 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 77

>gnl|CDD|240678 cd12232, RRM3_U2AF65, RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 47.2 bits (113), Expect = 1e-06
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 2/43 (4%)

Query: 679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSV 721
           + VL L N+  PE      + E EE+LEDV+ EC ++G V SV
Sbjct: 1   SRVLCLLNMVTPE--ELEDDEEYEEILEDVKEECGKYGKVLSV 41

This subfamily corresponds to the RRM3 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 89

>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 47/190 (24%), Positives = 82/190 (43%), Gaps = 18/190 (9%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAF 515
           LT++ R  R + V  L L A E+ L EF +       VQ +           +R KG A+
Sbjct: 82  LTEAERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDR------NSRRSKGVAY 135

Query: 516 VEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVS-GIVKDSP 574
           VEF   E    AL   G    G      RP   + V S +AEK+ A+  +        + 
Sbjct: 136 VEFYDVESVIKALALTGQMLLG------RP---IIVQSSQAEKNRAAKAATHQPGDIPNF 186

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKA--YHFEVNEDHEEPCAFIEYVDQLVTPKAIA 632
            K+++G +   ++ + + +I   FG ++    H +      +   FI++ D     +A+ 
Sbjct: 187 LKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALE 246

Query: 633 GLNGLKVGGQ 642
            +NG ++ G+
Sbjct: 247 VMNGFELAGR 256

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

>gnl|CDD|240668 cd00590, RRM_SF, RNA recognition motif (RRM) superfamily

 Score = 45.8 bits (109), Expect = 2e-06
 Identities = 27/79 (34%), Positives = 35/79 (44%), Gaps = 8/79 (10%)

Query: 466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDAS 525
           L V NLP   +E+ L E  + F     V+ V            + KG AFVEF + EDA 
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDG-------KSKGFAFVEFESPEDAE 53

Query: 526 AAL-CCDGCSFSGSILKIK 543
            AL   +G    G  LK+ 
Sbjct: 54  KALEALNGKELDGRKLKVS 72

RRM, 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. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs). Length = 72

>gnl|CDD|240678 cd12232, RRM3_U2AF65, RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 45.2 bits (108), Expect = 5e-06
 Identities = 13/43 (30%), Positives = 18/43 (41%)

Query: 912 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVE 954
           +     +   G VFVE+   E +  A  +L  R FD R V   
Sbjct: 47  EAEGVDVPGVGKVFVEFADVEDAQKAQLALAGRKFDGRTVVAS 89

This subfamily corresponds to the RRM3 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 89

>gnl|CDD|214636 smart00360, RRM, RNA recognition motif

 Score = 44.9 bits (107), Expect = 5e-06
 Identities = 15/72 (20%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAG 633
            +F+G +    + + + E+   FG +++     +++  +    AF+E+  +    KA+  
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 634 LNGLKVGGQVLT 645
           LNG ++ G+ L 
Sbjct: 61  LNGKELDGRPLK 72

Length = 73

>gnl|CDD|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 44.2 bits (105), Expect = 8e-06
 Identities = 29/79 (36%), Positives = 38/79 (48%), Gaps = 7/79 (8%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           RL V NLP + +E+ L E    F     +  VH  LP +    +R KG AFV F+  E A
Sbjct: 1   RLFVRNLPFTTTEEELRELFEAF---GEISEVH--LP-LDKETKRSKGFAFVSFMFPEHA 54

Query: 525 SAALC-CDGCSFSGSILKI 542
             A    DG  F G +L +
Sbjct: 55  VKAYSELDGSIFQGRLLHV 73

This subfamily corresponds to the RRM3 of RBM19 and RRM2 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 74

>gnl|CDD|240798 cd12352, RRM1_TIA1_like, RNA recognition motif 1 in granule-associated RNA binding proteins p40-TIA-1 and TIAR

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 1/66 (1%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 636
           +++G + RT++  ++ E+    GP+K+    + E   +P AF+EY D      A+  +NG
Sbjct: 1   LYVGNLDRTVTEDLLAELFSQIGPIKSCKL-IREHGNDPYAFVEYYDHRSAAAALQTMNG 59

Query: 637 LKVGGQ 642
             + GQ
Sbjct: 60  RLILGQ 65

This subfamily corresponds to the RRM1 of nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR), both of which are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. TIA-1 and TIAR share high sequence similarity. They are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis.TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both, TIA-1 and TIAR, bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. Length = 72

>gnl|CDD|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 43.3 bits (103), Expect = 2e-05
 Identities = 27/74 (36%), Positives = 36/74 (48%), Gaps = 9/74 (12%)

Query: 466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDAS 525
           L V NLP S +E+ L EF + +     V+ V      +     R +G AFVEF + EDA 
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPY---GKVEGVR-----LVRNKDRPRGFAFVEFASPEDAE 52

Query: 526 AAL-CCDGCSFSGS 538
           AAL   +G    G 
Sbjct: 53  AALKKLNGLVLDGR 66

k.a. RRM, RBD, or RNP domain). Length = 69

>gnl|CDD|214636 smart00360, RRM, RNA recognition motif

 Score = 42.6 bits (101), Expect = 3e-05
 Identities = 27/79 (34%), Positives = 35/79 (44%), Gaps = 7/79 (8%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
            L V NLP   +E+ L E  + F     V+ V            + KG AFVEF + EDA
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKF---GKVESVR---LVRDKETGKSKGFAFVEFESEEDA 54

Query: 525 SAAL-CCDGCSFSGSILKI 542
             AL   +G    G  LK+
Sbjct: 55  EKALEALNGKELDGRPLKV 73

Length = 73

>gnl|CDD|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 42.2 bits (100), Expect = 5e-05
 Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           + NLP  A+E+ L E  + F     V++          +    KG AFV+F T E A   
Sbjct: 5   IRNLPFDATEEELKELFSQF---GEVKYA---RIVKDKLTGHSKGTAFVKFKTKESAQKC 58

Query: 528 L 528
           L
Sbjct: 59  L 59

This subfamily corresponds to the RRM3 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 82

>gnl|CDD|240731 cd12285, RRM3_RBM39_like, RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins

 Score = 42.1 bits (100), Expect = 6e-05
 Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 2/47 (4%)

Query: 679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 725
           +  + LKN+F+P   +   +   +E+ EDV  EC++FG V+ + V K
Sbjct: 1   SRCVILKNMFDPAEETE--DEWDDEIKEDVLEECSKFGPVEHIKVDK 45

This subfamily corresponds to the RRM3 of RBM39, also termed hepatocellular carcinoma protein 1, or RNA-binding region-containing protein 2, or splicing factor HCC1, ia nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Based on the specific domain composition, RBM39 has been classified into a family of non-snRNP (small nuclear ribonucleoprotein) splicing factors that are usually not complexed to snRNAs. . Length = 85

>gnl|CDD|240700 cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognition motif found in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, epithelial splicing regulatory proteins (ESRPs), Drosophila RNA-binding protein Fusilli, RNA-binding protein 12 (RBM12) and similar proteins

 Score = 41.8 bits (99), Expect = 6e-05
 Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 8/68 (11%)

Query: 466 LCVENLPLSASEKALMEFLNNFLLS-SGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           + +  LP SA+E+ + +F +   +   G+  V+           R  G+A+VEF + EDA
Sbjct: 2   VRLRGLPFSATEEDIRDFFSGLDIPPDGIHIVYDD-------DGRPTGEAYVEFASPEDA 54

Query: 525 SAALCCDG 532
             AL    
Sbjct: 55  RRALRKHN 62

The family includes RRM domains in the hnRNP H protein family, G-rich sequence factor 1 (GRSF-1), ESRPs (also termed RBM35), Drosophila Fusilli, RBM12 (also termed SWAN), RBM12B, RBM19 (also termed RBD-1) and similar proteins. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. GRSF-1 is a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. Fusilli shows high sequence homology to ESRPs. It can regulate endogenous FGFR2 splicing and functions as a splicing factor. The biological roles of both, RBM12 and RBM12B, remain unclear. RBM19 is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. Members in this family contain 2~6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240668 cd00590, RRM_SF, RNA recognition motif (RRM) superfamily

 Score = 41.5 bits (98), Expect = 7e-05
 Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLN 635
           +F+G +    + + + E+   FG +++     ++D   +  AF+E+       KA+  LN
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 636 GLKVGGQVLTA 646
           G ++ G+ L  
Sbjct: 61  GKELDGRKLKV 71

RRM, 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. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs). Length = 72

>gnl|CDD|240732 cd12286, RRM_Man1, RNA recognition motif in inner nuclear membrane protein Man1 (Man1) and similar proteins

 Score = 42.3 bits (100), Expect = 7e-05
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 922 GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARF 965
           GCV+++    E +  A  +LH   FD R+V V+Y+ L  Y +RF
Sbjct: 48  GCVYIKCSSPEDAGKAFKALHGWWFDGRLVTVKYLRLERYHSRF 91

This subfamily corresponds to the RRM of Man1, also termed LEM domain-containing protein 3 (LEMD3), an integral protein of the inner nuclear membrane that binds to nuclear lamins and emerin, thus playing a role in nuclear organization. It is part of a protein complex essential for chromatin organization and cell division. It also functions as an important negative regulator for the transforming growth factor (TGF) beta/activin/Nodal signaling pathway by directly interacting with chromatin-associated proteins and transcriptional regulators, including the R-Smads, Smad1, Smad2, and Smad3. Moreover, Man1 is a unique type of left-right (LR) signaling regulator that acts on the inner nuclear membrane. Man1 plays a crucial role in angiogenesis. The vascular remodeling can be regulated at the inner nuclear membrane through the interaction between Man1 and Smads. Man1 contains an N-terminal LEM domain, two putative transmembrane domains, a MAN1-Src1p C-terminal (MSC) domain, and a C-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The LEM domain interacts with the DNA and chromatin-binding protein Barrier-to-Autointegration Factor, and is also necessary for efficient localization of MAN1 in the inner nuclear membrane. Research has indicated that C-terminal nucleoplasmic region of Man1 exhibits a DNA binding winged helix domain and is responsible for both DNA- and Smad-binding. . Length = 92

>gnl|CDD|240862 cd12416, RRM4_RBM28_like, RNA recognition motif 4 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 41.4 bits (98), Expect = 1e-04
 Identities = 22/77 (28%), Positives = 26/77 (33%), Gaps = 17/77 (22%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI-------------GCVIQREK 511
           RL + NLP S  EK L        L +  +      P I                  + K
Sbjct: 2   RLSIRNLPKSVDEKKL----KELFLKAVSERAGKKKPKIKQVKIMRDLKRVDPNGKGKSK 57

Query: 512 GQAFVEFLTAEDASAAL 528
           G  FVEF   E A  AL
Sbjct: 58  GYGFVEFTNHEHALKAL 74

This subfamily corresponds to the RRM4 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 98

>gnl|CDD|241059 cd12615, RRM1_TIA1, RNA recognition motif 1 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 14/66 (21%), Positives = 37/66 (56%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 636
           +++G +SR ++  +++++    GP K+    ++    +P  F+E+ +      ++A +NG
Sbjct: 2   LYVGNLSRDVTEALILQLFSQIGPCKSCKMIMDTAGNDPYCFVEFFEHRHAAASLAAMNG 61

Query: 637 LKVGGQ 642
            K+ G+
Sbjct: 62  RKIMGK 67

This subgroup corresponds to the RRM1 of TIA-1, the 40-kDa isoform of T-cell-restricted intracellular antigen-1 (TIA-1) and a cytotoxic granule-associated RNA-binding protein mainly found in the granules of cytotoxic lymphocytes. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis, and functions as the granule component responsible for inducing apoptosis in cytolytic lymphocyte (CTL) targets. It is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 74

>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 43.7 bits (103), Expect = 4e-04
 Identities = 19/92 (20%), Positives = 33/92 (35%), Gaps = 16/92 (17%)

Query: 219 KDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSR 278
           +DR   +    + R  K + R+R   ++RD+S                 R+  ++  + R
Sbjct: 3   RDRERGRLRNDTRRSDKGRERSRRRSRSRDRS----------------RRRRDRDYYRGR 46

Query: 279 HGNSRLKRRRSRSREREDRNRRSLSLSPRAQK 310
            G SR +      R R DR+ R          
Sbjct: 47  RGRSRSRSPNRYYRPRGDRSYRRDDRRSGRNT 78

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

>gnl|CDD|241060 cd12616, RRM1_TIAR, RNA recognition motif 1 in nucleolysin TIAR and similar proteins

 Score = 40.1 bits (93), Expect = 4e-04
 Identities = 15/66 (22%), Positives = 35/66 (53%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 636
           +++G +SR ++  +++++    GP K+          +P  F+E+ +      A+A +NG
Sbjct: 2   LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNG 61

Query: 637 LKVGGQ 642
            K+ G+
Sbjct: 62  RKILGK 67

This subgroup corresponds to the RRM1 of nucleolysin TIAR, also termed TIA-1-related protein, and a cytotoxic granule-associated RNA-binding protein that shows high sequence similarity with 40-kDa isoform of T-cell-restricted intracellular antigen-1 (p40-TIA-1). TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. TIAR possesses nucleolytic activity against cytolytic lymphocyte (CTL) target cells. It can trigger DNA fragmentation in permeabilized thymocytes, and thus may function as an effector responsible for inducing apoptosis. TIAR is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. It interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 81

>gnl|CDD|240728 cd12282, RRM2_TatSF1_like, RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 20/43 (46%), Positives = 28/43 (65%), Gaps = 1/43 (2%)

Query: 681 VLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
           V+ LKN+F+PE F     L + E+ +D+R EC +FG VK V V
Sbjct: 3   VVILKNLFSPEEFEEDPTL-INELRDDLREECEKFGQVKKVVV 44

This subfamily corresponds to the RRM2 of Tat-SF1 and CUS2. Tat-SF1 is the cofactor for stimulation of transcriptional elongation by human immunodeficiency virus-type 1 (HIV-1) Tat. It is a substrate of an associated cellular kinase. Tat-SF1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a highly acidic carboxyl-terminal half. The family also includes CUS2, a yeast homolog of human Tat-SF1. CUS2 interacts with U2 RNA in splicing extracts and functions as a splicing factor that aids assembly of the splicing-competent U2 snRNP in vivo. CUS2 also associates with PRP11 that is a subunit of the conserved splicing factor SF3a. Like Tat-SF1, CUS2 contains two RRMs as well. . Length = 91

>gnl|CDD|240855 cd12409, RRM1_RRT5, RNA recognition motif 1 in yeast regulator of rDNA transcription protein 5 (RRT5) and similar proteins

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 8/83 (9%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGV---QHVHGSLPCIGCVIQREKGQAFVEFLTA 521
           R+ + NL  S+SE+ L EFL +F   S +   Q V G          R  G A+ EF + 
Sbjct: 1   RVYISNLSYSSSEEDLEEFLKDFEPVSVLIPSQTVRG----FRSRRVRPLGIAYAEFSSP 56

Query: 522 EDASAAL-CCDGCSFSGSILKIK 543
           E A   +   +G  F    L +K
Sbjct: 57  EQAEKVVKDLNGKVFKNRKLFVK 79

This subfamily corresponds to the RRM1 of the lineage specific family containing a group of uncharacterized yeast regulators of rDNA transcription protein 5 (RRT5), which may play roles in the modulation of rDNA transcription. RRT5 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 84

>gnl|CDD|240911 cd12465, RRM_UHMK1, RNA recognition motif found in U2AF homology motif kinase 1 (UHMK1) and similar proteins

 Score = 38.8 bits (90), Expect = 9e-04
 Identities = 18/48 (37%), Positives = 30/48 (62%), Gaps = 2/48 (4%)

Query: 678 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 725
           PT VL+L NV +     +  E E E+++ED++ EC ++G V S+ + K
Sbjct: 2   PTPVLRLLNVLDDAHLQN--EEEYEDIIEDIKEECQKYGPVVSLLIPK 47

This subgroup corresponds to the RRM of UHMK1. UHMK1, also termed kinase interacting with stathmin (KIS) or P-CIP2, is a serine/threonine protein kinase functionally related to RNA metabolism and neurite outgrowth. It contains an N-terminal kinase domain and a C-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), with high homology to the corresponding motif of the mammalian U2 small nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65 or U2AF2). UHMK1 targets two key regulators of cell proliferation and migration, the cyclin-dependent kinase (CDK) inhibitor p27Kip1 and the microtubule-destabilizing protein stathmin. It plays a critical role during vascular wound repair by preventing excessive vascular smooth muscle cell (VSMC) migration into the vascular lesion. Moreover, UHMK1 may control cell migration and neurite outgrowth by interacting with and phosphorylating the splicing factor SF1, thereby probably contributing to the control of protein expression. Furthermore, UHMK1 may be functionally related to microtubule dynamics and axon development. It localizes to RNA granules, interacts with three proteins found in RNA granules (KIF3A, NonO, and eEF1A), and further enhances the local translation. UHMK1 is highly expressed in regions of the brain implicated in schizophrenia and may play a role in susceptibility to schizophrenia. Length = 88

>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional

 Score = 42.5 bits (100), Expect = 0.001
 Identities = 23/192 (11%), Positives = 42/192 (21%), Gaps = 18/192 (9%)

Query: 243 DEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSL 302
             ++    A          +        + E P  R     L  R   +      + R  
Sbjct: 224 PGRSAADDAGASSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPG 283

Query: 303 SLSPRAQKRTSYYDRE--HEGLPSHSTKISS----GRQHSDIDSS----------RVTGN 346
             S  +  R           G     +   +            SS               
Sbjct: 284 PASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSESSRGAAVSP 343

Query: 347 GLSGHYRRHDGSTSGLGGYSPRKRR--TEAAAKTPSPINRSPEKKSAKWDVAPVETYSVP 404
           G S                S  ++R     A  +P+     P ++ A+  VA        
Sbjct: 344 GPSPSRSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTRRRARAAVAGRARRRDA 403

Query: 405 SNVHTSNQAASS 416
           +    + +   S
Sbjct: 404 TGRFPAGRPRPS 415

Length = 1352

>gnl|CDD|206064 pfam13893, RRM_5, RNA recognition motif

 Score = 37.1 bits (87), Expect = 0.002
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)

Query: 501 PCIGCVIQREK-GQAFVEFLTAEDASAAL-CCDGCSFSGSILKIK 543
                 + ++K G AFVEF T E A  A+   +G  F G  L++ 
Sbjct: 10  NVEKIKLLKKKPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVD 54

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. Length = 56

>gnl|CDD|241011 cd12567, RRM3_RBM19, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 7/79 (8%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           RL + NL  + +E+ L +  + +     +  VH  LP I  + ++ KG AFV ++  E A
Sbjct: 4   RLFIRNLAYTCTEEDLEKLFSKY---GPLSEVH--LP-IDKLTKKPKGFAFVTYMIPEHA 57

Query: 525 SAALC-CDGCSFSGSILKI 542
             A    DG  F G +L +
Sbjct: 58  VKAFAELDGTVFQGRLLHL 76

This subgroup corresponds to the RRM3 of RBM19, also termed RNA-binding domain-1 (RBD-1), which is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|240892 cd12446, RRM_RBM25, RNA recognition motif in eukaryotic RNA-binding protein 25 and similar proteins

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAF--IEYVDQLVTPKAIA 632
             +F+G I   +S   + +++   G + ++    +    +  AF   E+ D     +A+ 
Sbjct: 1   TTVFVGNIPEGVSDDFIRKLLEKCGKVLSWKRVKDPSTGKLKAFGFCEFEDPEGALRALR 60

Query: 633 GLNGLKVGGQVLT 645
            LNGL++GG+ L 
Sbjct: 61  LLNGLELGGKKLL 73

This subfamily corresponds to the RRM of RBM25, also termed Arg/Glu/Asp-rich protein of 120 kDa (RED120), or protein S164, or RNA-binding region-containing protein 7, an evolutionary-conserved splicing coactivator SRm160 (SR-related nuclear matrix protein of 160 kDa, )-interacting protein. RBM25 belongs to a family of RNA-binding proteins containing a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), at the N-terminus, a RE/RD-rich (ER) central region, and a C-terminal proline-tryptophan-isoleucine (PWI) motif. It localizes to the nuclear speckles and associates with multiple splicing components, including splicing cofactors SRm160/300, U snRNAs, assembled splicing complexes, and spliced mRNAs. It may play an important role in pre-mRNA processing by coupling splicing with mRNA 3'-end formation. Additional research indicates that RBM25 is one of the RNA-binding regulators that direct the alternative splicing of apoptotic factors. It can activate proapoptotic Bcl-xS 5'ss by binding to the exonic splicing enhancer, CGGGCA, and stabilize the pre-mRNA-U1 snRNP through interaction with hLuc7A, a U1 snRNP-associated factor. . Length = 84

>gnl|CDD|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 1/70 (1%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 635
           +F+G +    + + + ++   FGP++            +  AF+E+ D+    KA+  LN
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 636 GLKVGGQVLT 645
           G ++GG+ L 
Sbjct: 61  GKELGGRELR 70

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|240671 cd12225, RRM1_2_CID8_like, RNA recognition motif 1 and 2 (RRM1, RRM2) in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 14/33 (42%), Positives = 17/33 (51%)

Query: 514 AFVEFLTAEDASAALCCDGCSFSGSILKIKRPK 546
           AFVEF  AE A +AL   G    G  L++   K
Sbjct: 43  AFVEFADAESALSALNLSGTLLGGHPLRVSPSK 75

This subgroup corresponds to the RRM domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 77

>gnl|CDD|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 36.4 bits (85), Expect = 0.004
 Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 8/75 (10%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           V NLP   +E+ L +  + F     ++ V            R KG AFVEF   EDA  A
Sbjct: 3   VGNLPPDTTEEDLKDLFSKFGPIESIRIVRDET-------GRSKGFAFVEFEDEEDAEKA 55

Query: 528 L-CCDGCSFSGSILK 541
           L   +G    G  L+
Sbjct: 56  LEALNGKELGGRELR 70

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|241010 cd12566, RRM2_MRD1, RNA recognition motif 2 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 29/83 (34%), Positives = 35/83 (42%), Gaps = 15/83 (18%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE----KGQAFVEFLT 520
           RL V NLP S  E  L       L S       G L  +   I ++    KG A+V FL 
Sbjct: 4   RLFVRNLPYSCKEDDL-----EKLFS-----KFGELSEVHVAIDKKSGKSKGFAYVLFLD 53

Query: 521 AEDASAALC-CDGCSFSGSILKI 542
            EDA  A    DG  F G ++ I
Sbjct: 54  PEDAVKAYKELDGKVFQGRLIHI 76

This subgroup corresponds to the RRM2 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 79

>gnl|CDD|240685 cd12239, RRM2_RBM40_like, RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

 Score = 36.8 bits (86), Expect = 0.004
 Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 6/66 (9%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ--REKGQAFVEFLTAE 522
           RL V+NL    +E+ L+     F+ SS              ++   R KGQAFV F + E
Sbjct: 3   RLYVKNLSKRVTEEDLVYIFGRFVDSSSE----EKNMFDIRLMTEGRMKGQAFVTFPSEE 58

Query: 523 DASAAL 528
            A+ AL
Sbjct: 59  IATKAL 64

This subfamily corresponds to the RRM2 of RBM40 and the RRM of RBM41. RBM40, also known as RNA-binding region-containing protein 3 (RNPC3) or U11/U12 small nuclear ribonucleoprotein 65 kDa protein (U11/U12-65K protein). It serves as a bridging factor between the U11 and U12 snRNPs. It contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), connected by a linker that includes a proline-rich region. It binds to the U11-associated 59K protein via its RRM1 and employs the RRM2 to bind hairpin III of the U12 small nuclear RNA (snRNA). The proline-rich region might be involved in protein-protein interactions. RBM41 contains only one RRM. Its biological function remains unclear. . Length = 82

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	967
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	100.0
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	100.0
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	100.0
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	100.0
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	100.0
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	100.0
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	100.0
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	100.0
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	100.0
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	100.0
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	100.0
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	100.0
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.97
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.97
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.97
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.97
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.96
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.96
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.95
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.95
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.94
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.93
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.93
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.93
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.92
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.9
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.88
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.88
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.88
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.87
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.87
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.84
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.84
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.83
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.78
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.77
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.73
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.71
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.68
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.68
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.65
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.63
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.59
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.55
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.52
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.48
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.47
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.45
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.43
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.41
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.4
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.36
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.35
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.32
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.31
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.3
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.27
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.25
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.21
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.21
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.2
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.2
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.19
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.14
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.12
PLN03120	260	nucleic acid binding protein; Provisional	99.07
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.07
PLN03120	260	nucleic acid binding protein; Provisional	99.05
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.05
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.05
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	99.04
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	99.03
PLN03213	759	repressor of silencing 3; Provisional	99.03
smart00362	72	RRM_2 RNA recognition motif.	99.01
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.01
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.0
KOG0122	270	consensus Translation initiation factor 3, subunit	98.99
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.99
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.98
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.97
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.96
PLN03121	243	nucleic acid binding protein; Provisional	98.95
PLN03121	243	nucleic acid binding protein; Provisional	98.95
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.93
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.91
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.91
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.91
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.89
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.87
smart00361	70	RRM_1 RNA recognition motif.	98.86
PLN03213	759	repressor of silencing 3; Provisional	98.85
smart00362	72	RRM_2 RNA recognition motif.	98.83
smart00360	71	RRM RNA recognition motif.	98.81
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.81
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.8
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.8
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.79
KOG0122	270	consensus Translation initiation factor 3, subunit	98.77
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.77
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.76
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.75
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.75
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.73
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.71
smart00361	70	RRM_1 RNA recognition motif.	98.71
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.69
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.67
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.67
smart00360	71	RRM RNA recognition motif.	98.66
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.66
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.65
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.63
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.63
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.59
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	98.53
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.42
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.41
KOG0226	290	consensus RNA-binding proteins [General function p	98.4
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	98.34
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.32
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.28
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.25
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.23
KOG4210	285	consensus Nuclear localization sequence binding pr	98.21
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.19
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	98.17
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.14
KOG1996	378	consensus mRNA splicing factor [RNA processing and	98.13
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.1
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.09
KOG1996	378	consensus mRNA splicing factor [RNA processing and	98.09
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.08
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.07
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.06
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.02
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.02
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.01
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.9
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	97.83
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.77
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.76
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	97.72
PF15519	73	RBM39linker: linker between RRM2 and RRM3 domains	97.72
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.71
KOG0151	877	consensus Predicted splicing regulator, contains R	97.7
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.69
KOG0151	877	consensus Predicted splicing regulator, contains R	97.65
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.65
KOG4210	285	consensus Nuclear localization sequence binding pr	97.64
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	97.57
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.49
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.48
KOG0226	290	consensus RNA-binding proteins [General function p	97.46
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.43
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.43
PF06495	182	Transformer: Fruit fly transformer protein; InterP	97.28
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.21
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.2
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	97.08
KOG2314	698	consensus Translation initiation factor 3, subunit	97.05
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.72
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.49
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.29
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.14
KOG4368	757	consensus Predicted RNA binding protein, contains	95.79
KOG1995	351	consensus Conserved Zn-finger protein [General fun	95.71
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	95.47
KOG2314	698	consensus Translation initiation factor 3, subunit	95.39
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	95.33
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	95.27
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	95.21
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	95.16
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	95.02
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	94.36
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.36
KOG1847	878	consensus mRNA splicing factor [RNA processing and	94.35
KOG3152	278	consensus TBP-binding protein, activator of basal	94.1
KOG1847	878	consensus mRNA splicing factor [RNA processing and	93.89
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	93.88
KOG3152	278	consensus TBP-binding protein, activator of basal	93.82
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.76
KOG1855	484	consensus Predicted RNA-binding protein [General f	93.45
KOG3263	196	consensus Nucleic acid binding protein [General fu	93.22
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	92.95
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	92.92
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	92.85
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	92.64
KOG0670	752	consensus U4/U6-associated splicing factor PRP4 [R	92.39
KOG1855	484	consensus Predicted RNA-binding protein [General f	90.8
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	89.9
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	89.49
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	88.97
PF08648	180	DUF1777: Protein of unknown function (DUF1777); In	88.66
KOG2548	653	consensus SWAP mRNA splicing regulator [RNA proces	85.9
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	85.65
KOG0670	752	consensus U4/U6-associated splicing factor PRP4 [R	85.5
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	85.47
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	83.04
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	82.12
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	80.47

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=100.00  E-value=4.8e-52  Score=494.51  Aligned_cols=310  Identities=26%  Similarity=0.389  Sum_probs=250.7

Q ss_pred             ccCCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceee
Q 002093          457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFS  536 (967)
Q Consensus       457 ~~~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~  536 (967)
                      ++.+...++|||||||+.+|+++|.+||+.|+...++.......+|..+.++.++|||||+|.++++|..||.|||+.|.
T Consensus       169 ~~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~l~g~~~~  248 (509)
T TIGR01642       169 QQATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDSIIYS  248 (509)
T ss_pred             ccCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhcCCCeEee
Confidence            45678889999999999999999999999998877765544345788889999999999999999999999999999999


Q ss_pred             cceeEEeCCCccccccccccccccccc---------CCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEe
Q 002093          537 GSILKIKRPKEFVEVASGEAEKSVASV---------DSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE  607 (967)
Q Consensus       537 Gr~l~V~rp~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~  607 (967)
                      |++|+|.++.+|.+.+...........         ...........++|||+|||..+++++|+++|+.||.|..+.|+
T Consensus       249 g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~  328 (509)
T TIGR01642       249 NVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLI  328 (509)
T ss_pred             CceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEE
Confidence            999999999998744211111100000         00112234557899999999999999999999999999999998


Q ss_pred             ecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCC---CCC----CCCCCCCCCCCCCC
Q 002093          608 VNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN---PPF----HGIPKHALPLLKKP  678 (967)
Q Consensus       608 ~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~---~~~----~~i~~~~~~~~~~p  678 (967)
                      .+.  +.++|||||+|.+.++|..|+..|||..|+|+.|.|.++............   .++    ..+..........+
T Consensus       329 ~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  408 (509)
T TIGR01642       329 KDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKP  408 (509)
T ss_pred             ecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccccccccccccccchhhhccccCCC
Confidence            874  457999999999999999999999999999999999998654432211111   111    11111112234568


Q ss_pred             CeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC----CCCcceeEEEEeCCHHHHHHHHHHhCC
Q 002093          679 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG----DSNISTIQACEGNENTASAGVGQNLTN  754 (967)
Q Consensus       679 s~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~----~g~~~G~gFVeF~~~e~A~~Ai~~LnG  754 (967)
                      ++||+|.||+++++|  +++++|++|.+||+++|++||.|+.|.|+++.    .+...|++||+|.+.++|++|+.+|||
T Consensus       409 s~v~~l~N~~~~~~l--~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnG  486 (509)
T TIGR01642       409 TKVVQLTNLVTGDDL--MDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNG  486 (509)
T ss_pred             ceEEEeccCCchhHh--cCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCC
Confidence            999999999999998  69999999999999999999999999999863    345678999999999999999999999


Q ss_pred             CccCCCcceeEEee
Q 002093          755 DETNEKGERLEEVT  768 (967)
Q Consensus       755 ~~~~~r~~~v~~~~  768 (967)
                      +.|+|+.+.+....
T Consensus       487 r~~~gr~v~~~~~~  500 (509)
T TIGR01642       487 RKFNDRVVVAAFYG  500 (509)
T ss_pred             CEECCeEEEEEEeC
Confidence            99999999886643

Members of this subfamily are found in plants, metazoa and fungi.

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]

Probab=100.00  E-value=1.8e-53  Score=474.60  Aligned_cols=332  Identities=17%  Similarity=0.209  Sum_probs=238.1

Q ss_pred             ccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCC
Q 002093          585 TLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP  662 (967)
Q Consensus       585 ~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~  662 (967)
                      .++..+|.+||+.+|.|.+|+++.|..  .++|.|||+|.+.+++..|| +|.|+.+.|.+|.|+.....++.....+ .
T Consensus       190 r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~a~~s-~  267 (549)
T KOG0147|consen  190 RNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRAANAS-P  267 (549)
T ss_pred             cCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHHHhcc-c
Confidence            345678999999999999999999965  46999999999999999999 5999999999999999877666522211 1


Q ss_pred             CCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCCcceeEEEEeCC
Q 002093          663 PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNISTIQACEGNE  741 (967)
Q Consensus       663 ~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~~~G~gFVeF~~  741 (967)
                      .+ +....     ..|-.-|++.|++...     ++       ++++.+|++||.|+.|.++++. +|.++|||||+|.+
T Consensus       268 a~-~~k~~-----~~p~~rl~vgnLHfNi-----te-------~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~  329 (549)
T KOG0147|consen  268 AL-QGKGF-----TGPMRRLYVGNLHFNI-----TE-------DMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVN  329 (549)
T ss_pred             cc-ccccc-----ccchhhhhhcccccCc-----hH-------HHHhhhccCcccceeeeeccccccccccCcceEEEec
Confidence            11 11111     1222228899987632     22       4789999999999999999997 99999999999999


Q ss_pred             HHHHHHHHHHhCCCccCCCcceeEEeecccccccchhhhhcchhhhhhhccccccCCCCCCCCCCCCCCcccccccchhh
Q 002093          742 NTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMA  821 (967)
Q Consensus       742 ~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~LM~~~~~~~~~~~~~~a  821 (967)
                      .++|++|+.+|||++|+|++|+|..++++..+...+.    ..++.++......+....+..+||++.++. ..+..+.+
T Consensus       330 ~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~----~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~-~~~~~~s~  404 (549)
T KOG0147|consen  330 KEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAV----TQFDFDEDDRQGLSLGSGGRNQLMAKLAEG-KGRSLPST  404 (549)
T ss_pred             HHHHHHHHHHhccceecCceEEEEEeeeecccccccc----cccccchhhccccccccccHHHHHHHHhcc-CCccccch
Confidence            9999999999999999999999999998663332211    111222221111122234456888883322 22222221


Q ss_pred             hhhh----cccCcccccccCCccccccCCCCCCCCCCccccccccccccccCCCcchhcccccccCCCCccccccccccc
Q 002093          822 VEYQ----ARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMG  897 (967)
Q Consensus       822 ~~~~----~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~i~~~c~~~~n~f~~~~e~~~~~~~~~~~~~~~~~~~~~  897 (967)
                      .+.+    +..........+..   +....+.++   .+.-+|+++||+|+|||||.+|+. +.|+              
T Consensus       405 ~~~~l~~~~~~~~~~~~~~~~~---~~~~~p~~~---~p~~~i~t~C~lL~nMFdpstete-~n~d--------------  463 (549)
T KOG0147|consen  405 AISALLLLAKLASAAQFNGVVR---VRSVDPADA---SPAFDIPTQCLLLSNMFDPSTETE-PNWD--------------  463 (549)
T ss_pred             hhhHHHhccccchHHhhcCCcC---ccccCcccc---ccccCCccHHHHHhhcCCcccccC-cchh--------------
Confidence            1111    01111110000000   111111111   334449999999999999999888 4444              


Q ss_pred             cccccccCCCCCCCCCCC----Cccc----ccceEEEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHHhhcCC
Q 002093          898 MQSSAVENGDNENQDPNQ----GHIF----EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK  967 (967)
Q Consensus       898 ~~e~~~e~~~~~~~e~~~----~~v~----~~G~VyVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~~Fp~  967 (967)
                           .||.+||++||.+    .|||    +.|||||+|+++++|.+|+++||||||+||||+|.|||+..||.+||.
T Consensus       464 -----~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~FP~  536 (549)
T KOG0147|consen  464 -----QEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKFPD  536 (549)
T ss_pred             -----hHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhCCC
Confidence                 8899999999986    7777    469999999999999999999999999999999999999999999995

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=100.00  E-value=1.1e-44  Score=411.00  Aligned_cols=325  Identities=33%  Similarity=0.505  Sum_probs=256.3

Q ss_pred             ccccCCCCCCCCCcCCCCCccccccccccccCCCcCCCCCCCCccccCCCcccccchhhccccCcccccccccCCCCCCE
Q 002093          386 PEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRR  465 (967)
Q Consensus       386 ~~R~~~~~d~~P~~~~sv~~a~q~s~q~~~s~l~p~p~~~P~~~a~~~p~~g~~~~~~~~~~~~~~~s~~~~~~~~~~r~  465 (967)
                      ..|....|+++|++++.+++......     ..+...++.|.......-.+ .        ......+...++.+...++
T Consensus       112 ~~r~~~~~~~~~~~fe~~~p~~~~~~-----~~~~~~~~~~~~~~~~~~~~-~--------~~~~~~~~~~~~~t~q~~r  177 (500)
T KOG0120|consen  112 YSRKRSLWDVPPEGFETITPDGAKLY-----KNFNATGQVPGDLSNPKKSL-K--------LPQLPTPPMDSQATRQARR  177 (500)
T ss_pred             cccchhhhcCCCCCCcccCchhhhhh-----hhccccCCCCCCcccccccc-c--------cccCCCCccCcchhhhhhh
Confidence            34556789999999998777221111     11222222222211110000 0        0001112233456778899


Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeCC
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRP  545 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~rp  545 (967)
                      +||+++|+.++++.+..+|+.-....|+.....+..++.+.+...++|||++|.+.++|..|+.+++..|.|+++++.++
T Consensus       178 ~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~~~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~  257 (500)
T KOG0120|consen  178 LYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNLEKNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRP  257 (500)
T ss_pred             hcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeecccccceeEEecCCCchhhhhcccchhhCCCCceeccc
Confidence            99999999999999999999988888887666556899999999999999999999999999999999999999999999


Q ss_pred             Cccccccccccccc---ccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEe
Q 002093          546 KEFVEVASGEAEKS---VASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIE  620 (967)
Q Consensus       546 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVe  620 (967)
                      .+|.+.+.......   ..........+++.++.+||++||..+++.++++++..||.+..+.++.+..  .++||||.+
T Consensus       258 ~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~e  337 (500)
T KOG0120|consen  258 HDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCE  337 (500)
T ss_pred             ccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeee
Confidence            99987643332211   1223334456678899999999999999999999999999999999999865  579999999


Q ss_pred             ecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCC---CCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCC
Q 002093          621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN---PPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLS  697 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~---~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~  697 (967)
                      |.++..+..|++.|||..++++.|+|+.|.++........+   .++++|+....+..+.|+.||+|+||+++++|  .+
T Consensus       338 y~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deL--kd  415 (500)
T KOG0120|consen  338 YCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDEL--KD  415 (500)
T ss_pred             eeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHh--cc
Confidence            99999999999999999999999999999887665433322   35777877777888999999999999999999  59


Q ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEEecC
Q 002093          698 ELEVEEVLEDVRLECARFGSVKSVNVVKY  726 (967)
Q Consensus       698 ~~~~eei~eDIr~~f~kFG~V~~V~I~r~  726 (967)
                      +++|++|+|||+.+|.+||.|.+|.|+++
T Consensus       416 d~EyeeIlEdvr~ec~k~g~v~~v~ipr~  444 (500)
T KOG0120|consen  416 DEEYEEILEDVRTECAKFGAVRSVEIPRP  444 (500)
T ss_pred             hHHHHHHHHHHHHHhcccCceeEEecCCC
Confidence            99999999999999999999999999985

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=100.00  E-value=3.9e-41  Score=395.75  Aligned_cols=290  Identities=22%  Similarity=0.282  Sum_probs=225.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..   |   ..+.+..++.++|||||+|.+.++|.+||.|+|..|.|++|
T Consensus        87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~---v---~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i  160 (457)
T TIGR01622        87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRD---V---QCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPI  160 (457)
T ss_pred             cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeE---E---EEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeee
Confidence            45679999999999999999999999996433   2   24466678899999999999999999999999999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aF  618 (967)
                      .|...........       ........ ......+|||+|||..+++++|+++|++||.|..|.|+.+..  .++||||
T Consensus       161 ~v~~~~~~~~~~~-------~~~~~~~~-~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~af  232 (457)
T TIGR01622       161 IVQSSQAEKNRAA-------KAATHQPG-DIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGF  232 (457)
T ss_pred             EEeecchhhhhhh-------hcccccCC-CCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEE
Confidence            9984321110000       00000000 012268999999999999999999999999999999998854  4699999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcC---------------CC-----------------C--CCCCC
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIM---------------DN-----------------S--GNPPF  664 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~---------------~~-----------------~--~~~~~  664 (967)
                      |+|.+.++|.+|+..|||..|.|+.|.|.++.......               ..                 .  +...+
T Consensus       233 V~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  312 (457)
T TIGR01622       233 IQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLI  312 (457)
T ss_pred             EEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccC
Confidence            99999999999999999999999999999964211000               00                 0  00000


Q ss_pred             CC--------------------CC---------CCC----CCC--CCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHH
Q 002093          665 HG--------------------IP---------KHA----LPL--LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVR  709 (967)
Q Consensus       665 ~~--------------------i~---------~~~----~~~--~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr  709 (967)
                      ++                    ++         ...    .+.  ...+++||+|.||+++.++  .++.++.+|++||+
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~--~~~~~~~~~~~dv~  390 (457)
T TIGR01622       313 PGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATE--EEPNFDNEILDDVK  390 (457)
T ss_pred             CCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCccc--ccchHHHHHHHHHH
Confidence            00                    00         000    000  2357899999999999887  58899999999999


Q ss_pred             HHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          710 LECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       710 ~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ++|++||.|+.|.|+.+   ...|++||+|.+.++|.+|++.|||+.|+|+.+.+.....
T Consensus       391 ~e~~k~G~v~~v~v~~~---~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~~  447 (457)
T TIGR01622       391 EECSKYGGVVHIYVDTK---NSAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVVN  447 (457)
T ss_pred             HHHHhcCCeeEEEEeCC---CCceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEcH
Confidence            99999999999999854   2458999999999999999999999999999998877643

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=100.00  E-value=7.2e-37  Score=359.59  Aligned_cols=347  Identities=11%  Similarity=0.145  Sum_probs=226.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+||. |+|..|.|++|.|.++..
T Consensus        89 ~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~  167 (457)
T TIGR01622        89 DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQA  167 (457)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecch
Confidence            57899999999999999999999999999999998853  469999999999999999996 999999999999988754


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~  730 (967)
                      ..........    ..+     .....+..|+|.||...     +++       ++|+++|++||.|+.|.|+++. +|.
T Consensus       168 ~~~~~~~~~~----~~~-----~~~p~~~~l~v~nl~~~-----~te-------~~l~~~f~~~G~i~~v~~~~d~~~g~  226 (457)
T TIGR01622       168 EKNRAAKAAT----HQP-----GDIPNFLKLYVGNLHFN-----ITE-------QELRQIFEPFGDIEDVQLHRDPETGR  226 (457)
T ss_pred             hhhhhhhccc----ccC-----CCCCCCCEEEEcCCCCC-----CCH-------HHHHHHHHhcCCeEEEEEEEcCCCCc
Confidence            4332111000    000     00123688999999642     233       5789999999999999999875 568


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeecccccccchhhhhcchhhhhhhccccccCCCCCCCCCCCCCC
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEP  810 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~LM~~~~  810 (967)
                      ++|||||+|.+.++|.+|+..|||..|.|+.+.|....+......... ....   .+................||++..
T Consensus       227 ~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~~  302 (457)
T TIGR01622       227 SKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAAN-TFED---IDKQQQMGKNLNTEEREQLMEKLD  302 (457)
T ss_pred             cceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchh-hhcc---ccccccCCcCCCccchHHHHHhhc
Confidence            999999999999999999999999999999999988765331111100 0000   000000000001111112222210


Q ss_pred             ccc--ccccchhhhhhh---cccCcccccccCCcc---ccccCCCCCCCCCCccccccccccccccCCCcchhccccccc
Q 002093          811 SQL--CELDTDMAVEYQ---ARDSTSEIVSQGVPT---QVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEV  882 (967)
Q Consensus       811 ~~~--~~~~~~~a~~~~---~~~~~~~~~~q~~~~---~~~~~~~~~~~~~~~~~~~i~~~c~~~~n~f~~~~e~~~~~~  882 (967)
                      ...  +.+..+.+....   ........+....+.   ...................+.+.|+++.|||++.++.. +.|
T Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~-~~~  381 (457)
T TIGR01622       303 RDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEEE-PNF  381 (457)
T ss_pred             cCCCCccccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCccccc-chH
Confidence            000  000000000000   000000000000000   00000000000000011236789999999999976544 111


Q ss_pred             CCCCccccccccccccccccccCCCCCCCCCCC-Cccc--------ccceEEEEecCHHHHHHHHHHhhccccCCceEEE
Q 002093          883 NGNSEAFTGASNEMGMQSSAVENGDNENQDPNQ-GHIF--------EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAV  953 (967)
Q Consensus       883 ~~~~~~~~~~~~~~~~~e~~~e~~~~~~~e~~~-~~v~--------~~G~VyVkF~s~eaA~~A~~aLhGR~FagR~I~A  953 (967)
                                         ..|+.+|+.+||.+ |.|.        ..|+|||+|.++++|++|+++||||||+||.|+|
T Consensus       382 -------------------~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~  442 (457)
T TIGR01622       382 -------------------DNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALAAFQALNGRYFGGKMITA  442 (457)
T ss_pred             -------------------HHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHHHHHHhcCcccCCeEEEE
Confidence                               25667778888887 4443        3699999999999999999999999999999999


Q ss_pred             EecChhhHHhhcC
Q 002093          954 EYIPLNLYRARFS  966 (967)
Q Consensus       954 ~yv~~~~Y~~~Fp  966 (967)
                      .|++++.|..+||
T Consensus       443 ~~~~~~~~~~~~~  455 (457)
T TIGR01622       443 AFVVNDVYDMSCL  455 (457)
T ss_pred             EEEcHHHHHhhcC
Confidence            9999999999997

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=100.00  E-value=7e-36  Score=359.90  Aligned_cols=251  Identities=18%  Similarity=0.257  Sum_probs=206.5

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      +|||||||+++||++|.++|+.||.+..|      ..+.+..+++++|||||+|.+.++|.+||. ||+..|.|++|+|.
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v------~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~   75 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSV------RVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIM   75 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEee
Confidence            69999999999999999999999964332      234566678999999999999999999999 99999999999998


Q ss_pred             CCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeec
Q 002093          544 RPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYV  622 (967)
Q Consensus       544 rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~  622 (967)
                      +...-         .         ........+|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.
T Consensus        76 ~s~~~---------~---------~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~  137 (562)
T TIGR01628        76 WSQRD---------P---------SLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFE  137 (562)
T ss_pred             ccccc---------c---------cccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEEC
Confidence            52110         0         0011234679999999999999999999999999999998875 457999999999


Q ss_pred             CcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHH
Q 002093          623 DQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVE  702 (967)
Q Consensus       623 ~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~e  702 (967)
                      +.++|.+|+..|||..+.|+.|.|....+......                ......+.|+|.|+....     ++    
T Consensus       138 ~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~~~~----------------~~~~~~~~l~V~nl~~~~-----te----  192 (562)
T TIGR01628       138 KEESAKAAIQKVNGMLLNDKEVYVGRFIKKHEREA----------------APLKKFTNLYVKNLDPSV-----NE----  192 (562)
T ss_pred             CHHHHHHHHHHhcccEecCceEEEecccccccccc----------------ccccCCCeEEEeCCCCcC-----CH----
Confidence            99999999999999999999999976543322110                011234568889985422     22    


Q ss_pred             HHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC----CCcceeEEe
Q 002093          703 EVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN----EKGERLEEV  767 (967)
Q Consensus       703 ei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~----~r~~~v~~~  767 (967)
                         ++|+++|++||.|.+|.|.++..|..+|||||+|.+.++|.+|++.|||..|.    ++.+.+...
T Consensus       193 ---e~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a  258 (562)
T TIGR01628       193 ---DKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRA  258 (562)
T ss_pred             ---HHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecc
Confidence               57899999999999999999988999999999999999999999999999999    776666543

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=100.00  E-value=4.4e-35  Score=332.73  Aligned_cols=269  Identities=15%  Similarity=0.175  Sum_probs=210.9

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|++|+
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~------i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~   76 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCK------LVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIK   76 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEE------EEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEE
Confidence            46899999999999999999999999644432      34556678999999999999999999999 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEE
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFI  619 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFV  619 (967)
                      |.+.....                    ......+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||
T Consensus        77 v~~a~~~~--------------------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv  136 (352)
T TIGR01661        77 VSYARPSS--------------------DSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFI  136 (352)
T ss_pred             EEeecccc--------------------cccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEE
Confidence            97421100                    01124689999999999999999999999999999998874  457999999


Q ss_pred             eecCcchHHHHHHHhCCCccCC--eEEEEEEcccCCCcCC---------------CCCCCC----------C--------
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLDGSIMD---------------NSGNPP----------F--------  664 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~~~~~~~---------------~~~~~~----------~--------  664 (967)
                      +|.+.++|..|++.|||..+.|  ..|.|.++........               ......          .        
T Consensus       137 ~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (352)
T TIGR01661       137 RFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFR  216 (352)
T ss_pred             EECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccc
Confidence            9999999999999999999877  6788888743221000               000000          0        


Q ss_pred             ---------------------------CCCC-----------CCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHH
Q 002093          665 ---------------------------HGIP-----------KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLE  706 (967)
Q Consensus       665 ---------------------------~~i~-----------~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~e  706 (967)
                                                 ...+           ....+.......+|+|.||....     ++       +
T Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~-----~e-------~  284 (352)
T TIGR01661       217 PSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDT-----DE-------T  284 (352)
T ss_pred             cCcchhhhhhhhhhhhcccccccccccCCCccccccccccccCCCCCCCCCCCcEEEEeCCCCCC-----CH-------H
Confidence                                       0000           00000011234479999997532     22       5


Q ss_pred             HHHHHHhcCCCeEEEEEecCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          707 DVRLECARFGSVKSVNVVKYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       707 DIr~~f~kFG~V~~V~I~r~~-~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +|+++|++||.|++|.|+++. +|.++|||||+|.+.++|.+||..|||..|+|+.|+|...+.
T Consensus       285 ~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~  348 (352)
T TIGR01661       285 VLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN  348 (352)
T ss_pred             HHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence            799999999999999999986 899999999999999999999999999999999999988764

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=100.00  E-value=7.2e-35  Score=347.15  Aligned_cols=296  Identities=15%  Similarity=0.210  Sum_probs=197.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhc------------CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAF------------GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  640 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~------------G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~  640 (967)
                      ...+|||+|||..+|+++|+++|..|            +.|..+.+..    .+|||||+|.+.++|..||+ |+|+.|.
T Consensus       174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~----~kg~afVeF~~~e~A~~Al~-l~g~~~~  248 (509)
T TIGR01642       174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK----EKNFAFLEFRTVEEATFAMA-LDSIIYS  248 (509)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC----CCCEEEEEeCCHHHHhhhhc-CCCeEee
Confidence            35789999999999999999999985            2344444432    58999999999999999995 9999999


Q ss_pred             CeEEEEEEcccCCCcCCCC-----CC--CCCCCCC-CCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHH
Q 002093          641 GQVLTAVQAVLDGSIMDNS-----GN--PPFHGIP-KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLEC  712 (967)
Q Consensus       641 Gr~I~V~~a~~~~~~~~~~-----~~--~~~~~i~-~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f  712 (967)
                      |+.|.|.............     ..  ....... .............|+|.||....     ++       ++|+++|
T Consensus       249 g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~-----~~-------~~l~~~f  316 (509)
T TIGR01642       249 NVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYL-----GE-------DQIKELL  316 (509)
T ss_pred             CceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCC-----CH-------HHHHHHH
Confidence            9999997653322111000     00  0000000 00001112345789999996532     33       5789999


Q ss_pred             hcCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeecccccccchhhhhcchhhhhhhc
Q 002093          713 ARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAG  791 (967)
Q Consensus       713 ~kFG~V~~V~I~r~-~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~~~~~~~~~~~~~s~~~~~~~  791 (967)
                      +.||.|+.|.|+++ .+|..+|||||+|.+.++|..|++.|||..|.|+.+.|..+..........              
T Consensus       317 ~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~--------------  382 (509)
T TIGR01642       317 ESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATID--------------  382 (509)
T ss_pred             HhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCcc--------------
Confidence            99999999999987 478899999999999999999999999999999999887765321000000              


Q ss_pred             cccccCCCCCCCCCCCCCCcccccccchhhhhhhcccCcccccccCCccccccCCCCCCCCCCccccccccccccccCCC
Q 002093          792 EVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKS  871 (967)
Q Consensus       792 ~~~~~~~~~~~~~LM~~~~~~~~~~~~~~a~~~~~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~i~~~c~~~~n~f  871 (967)
                       ...  .......++..                         ..+...            .    ...+++.|+++.|||
T Consensus       383 -~~~--~~~~~~~~~~~-------------------------~~~~~~------------~----~~~~~s~v~~l~N~~  418 (509)
T TIGR01642       383 -TSN--GMAPVTLLAKA-------------------------LSQSIL------------Q----IGGKPTKVVQLTNLV  418 (509)
T ss_pred             -ccc--ccccccccccc-------------------------chhhhc------------c----ccCCCceEEEeccCC
Confidence             000  00000000000                         000000            0    011456788888997


Q ss_pred             cchhcccccccCCCCccccccccccccccccccCCCCCCCCCCC-Cccc---------------ccceEEEEecCHHHHH
Q 002093          872 SAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQ-GHIF---------------EPGCVFVEYMRAEASC  935 (967)
Q Consensus       872 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~~~~~~e~~~-~~v~---------------~~G~VyVkF~s~eaA~  935 (967)
                      .+.....                    .+.+.++.+++.++|.+ |.|.               ..|+|||+|.++++|.
T Consensus       419 ~~~~l~~--------------------d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~  478 (509)
T TIGR01642       419 TGDDLMD--------------------DEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAE  478 (509)
T ss_pred             chhHhcC--------------------cchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHH
Confidence            6543222                    01123344455555554 2221               2489999999999999


Q ss_pred             HHHHHhhccccCCceEEEEecChhhHHh
Q 002093          936 MAAHSLHRRLFDDRIVAVEYIPLNLYRA  963 (967)
Q Consensus       936 ~A~~aLhGR~FagR~I~A~yv~~~~Y~~  963 (967)
                      +|+++||||||+||+|.|.|++.+.|+.
T Consensus       479 ~A~~~lnGr~~~gr~v~~~~~~~~~~~~  506 (509)
T TIGR01642       479 KAMEGMNGRKFNDRVVVAAFYGEDCYKA  506 (509)
T ss_pred             HHHHHcCCCEECCeEEEEEEeCHHHhhc
Confidence            9999999999999999999999999975

Members of this subfamily are found in plants, metazoa and fungi.

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=100.00  E-value=2.5e-34  Score=337.96  Aligned_cols=178  Identities=24%  Similarity=0.326  Sum_probs=147.8

Q ss_pred             cCCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       458 ~~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ++....++|||||||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.
T Consensus       102 ~a~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV------~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~  175 (612)
T TIGR01645       102 QALAIMCRVYVGSISFELREDTIRRAFDPFGPIKSI------NMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLG  175 (612)
T ss_pred             hhhcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEE------EEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEe
Confidence            344567899999999999999999999999964433      234566789999999999999999999999 9999999


Q ss_pred             cceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCC
Q 002093          537 GSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEE  614 (967)
Q Consensus       537 Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~sk  614 (967)
                      |+.|+|.++..+......        .... ........+|||+|||..+++++|+++|+.||.|..++|.++..  .++
T Consensus       176 GR~IkV~rp~~~p~a~~~--------~~~~-~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksK  246 (612)
T TIGR01645       176 GRNIKVGRPSNMPQAQPI--------IDMV-QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHK  246 (612)
T ss_pred             cceeeecccccccccccc--------cccc-cccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcC
Confidence            999999976554321100        0000 00112347899999999999999999999999999999998854  469


Q ss_pred             CEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      |||||+|.+.++|.+|++.|||..|+|+.|.|.++.
T Consensus       247 GfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi  282 (612)
T TIGR01645       247 GYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV  282 (612)
T ss_pred             CeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence            999999999999999999999999999999998875

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=100.00  E-value=7.2e-33  Score=326.81  Aligned_cols=270  Identities=18%  Similarity=0.135  Sum_probs=200.8

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH---ccCceeecc
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSFSGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~---lng~~l~Gr  538 (967)
                      ++++|||+|||+.+|+++|+++|++||.            |..+.+-.++|||||+|.+.++|..|+.   +++..|.|+
T Consensus         1 ps~vv~V~nLp~~~te~~L~~~f~~fG~------------V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~   68 (481)
T TIGR01649         1 PSPVVHVRNLPQDVVEADLVEALIPFGP------------VSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQ   68 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcCC------------eeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCe
Confidence            4679999999999999999999999994            4455555678999999999999999998   478999999


Q ss_pred             eeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEE
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAF  618 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aF  618 (967)
                      +|.|.+..........    +   .. .....+....+|||+||+..+|+++|+++|++||.|..|.|.++.  ..|+||
T Consensus        69 ~l~v~~s~~~~~~~~~----~---~~-~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~--~~~~af  138 (481)
T TIGR01649        69 PAFFNYSTSQEIKRDG----N---SD-FDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKN--NVFQAL  138 (481)
T ss_pred             EEEEEecCCcccccCC----C---Cc-ccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecC--CceEEE
Confidence            9999854321100000    0   00 000111223579999999999999999999999999999987764  357999


Q ss_pred             EeecCcchHHHHHHHhCCCccCC--eEEEEEEcccCCCcC-----C--------CCC-------------CCCC------
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLDGSIM-----D--------NSG-------------NPPF------  664 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~~~~~~-----~--------~~~-------------~~~~------  664 (967)
                      |+|.+.++|.+|++.|||..|.|  +.|+|.++.+.....     .        ..+             ...+      
T Consensus       139 Vef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~~l~v~~~~~~s~dyt~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  218 (481)
T TIGR01649       139 VEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPS  218 (481)
T ss_pred             EEECCHHHHHHHHHHhcCCcccCCceEEEEEEecCCCceeEecccCCCCCcCCCCCCCCCCCcCccccccccccccCCCc
Confidence            99999999999999999999854  588888876532100     0        000             0000      


Q ss_pred             ------C--------------CCC------C--------CC--------CCCCCCCCeEEEccccCCCCCCCCCChHHHH
Q 002093          665 ------H--------------GIP------K--------HA--------LPLLKKPTEVLKLKNVFNPEGFSSLSELEVE  702 (967)
Q Consensus       665 ------~--------------~i~------~--------~~--------~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~e  702 (967)
                            +              .++      .        ..        .+....++.+|+|.||... .   +++    
T Consensus       219 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL~~~-~---vt~----  290 (481)
T TIGR01649       219 SYGHDGYSSHGGPLAPLAGGDRMGPPHGPPSRYRPAYEAAPLAPAISSYGPAGGGPGSVLMVSGLHQE-K---VNC----  290 (481)
T ss_pred             cCCCcccccCCCCCCcccccccCCCcccCCCCCcccccccccCccccccCCCCCCCCCEEEEeCCCCC-C---CCH----
Confidence                  0              000      0        00        0111346789999998631 1   122    


Q ss_pred             HHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          703 EVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       703 ei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                         ++|+++|+.||.|..|+|+++.    +|||||+|.+.++|..|+..|||..|.|+.+.|..+.
T Consensus       291 ---~~L~~lF~~yG~V~~vki~~~~----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~  349 (481)
T TIGR01649       291 ---DRLFNLFCVYGNVERVKFMKNK----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSK  349 (481)
T ss_pred             ---HHHHHHHHhcCCeEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence               5799999999999999999863    5899999999999999999999999999999997754

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=100.00  E-value=2.4e-33  Score=329.77  Aligned_cols=175  Identities=16%  Similarity=0.194  Sum_probs=143.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+++++|+++|.+||.|..|.|+.|.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~  185 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  185 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence            35789999999999999999999999999999999884  4579999999999999999999999999999999998653


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DS  729 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g  729 (967)
                      ........     ...+     .........|+|.||...     +++       ++|+++|++||.|++|.|+++. .|
T Consensus       186 ~~p~a~~~-----~~~~-----~~~~~~~~rLfVgnLp~~-----vte-------edLk~lFs~FG~I~svrl~~D~~tg  243 (612)
T TIGR01645       186 NMPQAQPI-----IDMV-----QEEAKKFNRIYVASVHPD-----LSE-------TDIKSVFEAFGEIVKCQLARAPTGR  243 (612)
T ss_pred             cccccccc-----cccc-----cccccccceEEeecCCCC-----CCH-------HHHHHHHhhcCCeeEEEEEecCCCC
Confidence            22111000     0000     001123467999998642     233       5799999999999999999885 56


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ..+|||||+|.+.++|.+|+..|||.+|+|+.++|...+.
T Consensus       244 ksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       244 GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             CcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            7899999999999999999999999999999999988774

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]

Probab=100.00  E-value=2.6e-33  Score=313.50  Aligned_cols=288  Identities=21%  Similarity=0.266  Sum_probs=226.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ++..++||+--|+..+++.+|.+||+.+|++..+      ..|.+...++++|.|||+|.+.+....|+.|.|..+.|.+
T Consensus       176 ERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdV------riI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~p  249 (549)
T KOG0147|consen  176 ERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDV------RIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVP  249 (549)
T ss_pred             HHhHHHHHHHHHhhcCCchhHHHHHHhhcCccee------EeeccccchhhcceeEEEEecccchhhHhhhcCCcccCce
Confidence            4667788888888899999999999999974443      2557788899999999999999999999999999999999


Q ss_pred             eEEeCCCcccccccccccccccccC---CcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec--CCCCC
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVD---SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEE  614 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d--~~~sk  614 (967)
                      |.|+         .+..+++..+..   ........+...|||+||.+++++++|+.+|++||.|..|.+.+|  ++.++
T Consensus       250 v~vq---------~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~sk  320 (549)
T KOG0147|consen  250 VIVQ---------LSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSK  320 (549)
T ss_pred             eEec---------ccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHhhhccCcccceeeeecccccccccc
Confidence            9998         333344332111   110011112233999999999999999999999999999999998  56789


Q ss_pred             CEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcC-------------------CCCCC-------CC-----
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIM-------------------DNSGN-------PP-----  663 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~-------------------~~~~~-------~~-----  663 (967)
                      ||+||+|.+.++|.+|+..|||+.|.|+.|+|....-.....                   +..+-       .+     
T Consensus       321 gfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~  400 (549)
T KOG0147|consen  321 GFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRS  400 (549)
T ss_pred             CcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecccccccccccccchhhccccccccccHHHHHHHHhccCCcc
Confidence            999999999999999999999999999999987542110000                   00000       00     


Q ss_pred             --------------------CC-------CCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCC
Q 002093          664 --------------------FH-------GIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG  716 (967)
Q Consensus       664 --------------------~~-------~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG  716 (967)
                                          +.       ..|..+.|....|+.|+.|.|||+|.+..  .+.|..+|.|||.++|.+||
T Consensus       401 ~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL~nMFdpstet--e~n~d~eI~edV~Eec~k~g  478 (549)
T KOG0147|consen  401 LPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLLSNMFDPSTET--EPNWDQEIREDVIEECGKHG  478 (549)
T ss_pred             ccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHHHhhcCCccccc--CcchhhHHHHHHHHHHHhcC
Confidence                                00       01111122223789999999999999884  78899999999999999999


Q ss_pred             CeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          717 SVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       717 ~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      .|..|.|.++..    |+.||.|.+.+.|..|+.+|||++|+|+.|......
T Consensus       479 ~v~hi~vd~ns~----g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~  526 (549)
T KOG0147|consen  479 KVCHIFVDKNSA----GCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLP  526 (549)
T ss_pred             CeeEEEEccCCC----ceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEee
Confidence            999999988643    788999999999999999999999999999876654

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=99.97  E-value=2.2e-30  Score=312.32  Aligned_cols=270  Identities=17%  Similarity=0.181  Sum_probs=212.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||.++|+++|+++|+.||.+..+       .|.....+.++|||||+|.+.++|..|++ |||..+.|+.|.
T Consensus        88 ~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~-------~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~  160 (562)
T TIGR01628        88 VGNIFVKNLDKSVDNKALFDTFSKFGNILSC-------KVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVY  160 (562)
T ss_pred             CCceEEcCCCccCCHHHHHHHHHhcCCccee-------EeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEE
Confidence            3579999999999999999999999964443       22333467899999999999999999999 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEe
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIE  620 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVe  620 (967)
                      |.........     .          .......++|||+|||..+|+++|+++|+.||.|..+.+..+. +.++|||||+
T Consensus       161 v~~~~~~~~~-----~----------~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~  225 (562)
T TIGR01628       161 VGRFIKKHER-----E----------AAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVN  225 (562)
T ss_pred             Eecccccccc-----c----------cccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEE
Confidence            9742211110     0          0112335789999999999999999999999999999998874 4569999999


Q ss_pred             ecCcchHHHHHHHhCCCccC----CeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCC
Q 002093          621 YVDQLVTPKAIAGLNGLKVG----GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSL  696 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~----Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i  696 (967)
                      |.+.++|.+|++.|+|..|.    |+.|.|.++........... ..+.....  ..........|+|.|+....     
T Consensus       226 F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~~-~~~~~~~~--~~~~~~~~~~l~V~nl~~~~-----  297 (562)
T TIGR01628       226 FEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAELR-RKFEELQQ--ERKMKAQGVNLYVKNLDDTV-----  297 (562)
T ss_pred             ECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHHH-hhHHhhhh--hhhcccCCCEEEEeCCCCcc-----
Confidence            99999999999999999999    99999988754332110000 00000000  00012235668999986522     


Q ss_pred             ChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          697 SELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       697 ~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ++       ++|+++|++||.|.+|+|+.+..|.++|||||+|.+.++|.+|+..|||..|+|+.+.|..+..
T Consensus       298 ~~-------~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~  363 (562)
T TIGR01628       298 TD-------EKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQR  363 (562)
T ss_pred             CH-------HHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccC
Confidence            33       5799999999999999999998999999999999999999999999999999999999987654

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]

Probab=99.97  E-value=9.8e-30  Score=259.82  Aligned_cols=270  Identities=17%  Similarity=0.216  Sum_probs=211.6

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ....|.|.-||.++|+++|+.+|...|+      |+...+|.+..+|.+.||+||.|.++++|++|+. |||..|..+.|
T Consensus        40 skTNLIvNYLPQ~MTqdE~rSLF~SiGe------iEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTI  113 (360)
T KOG0145|consen   40 SKTNLIVNYLPQNMTQDELRSLFGSIGE------IESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTI  113 (360)
T ss_pred             ccceeeeeecccccCHHHHHHHhhcccc------eeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceE
Confidence            3456999999999999999999988774      4445577888999999999999999999999999 99999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aF  618 (967)
                      +|..+.    + .         .      .......|||++||..+|..+|..+|++||.|.--+|+.|.  +.++|.+|
T Consensus       114 KVSyAR----P-S---------s------~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgF  173 (360)
T KOG0145|consen  114 KVSYAR----P-S---------S------DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGF  173 (360)
T ss_pred             EEEecc----C-C---------h------hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeE
Confidence            998421    1 0         0      01234689999999999999999999999999887777774  45799999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCe--EEEEEEcccCC-CcCC-------------CCCCCC-------------------
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQ--VLTAVQAVLDG-SIMD-------------NSGNPP-------------------  663 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr--~I~V~~a~~~~-~~~~-------------~~~~~~-------------------  663 (967)
                      |.|....+|..||..|||..-.|.  +|+|++|.... ....             ..+...                   
T Consensus       174 iRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~  253 (360)
T KOG0145|consen  174 IRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQA  253 (360)
T ss_pred             EEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhc
Confidence            999999999999999999987654  69999884221 1100             000000                   


Q ss_pred             -CC--------CCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC-CCcce
Q 002093          664 -FH--------GIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-SNIST  733 (967)
Q Consensus       664 -~~--------~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~-g~~~G  733 (967)
                       +.        ++.....+.......||++.|+-...+.         .   -|.++|.+||.|.+|+|++|.+ ..++|
T Consensus       254 rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd~de---------~---~LWQlFgpFGAv~nVKvirD~ttnkCKG  321 (360)
T KOG0145|consen  254 RFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPDADE---------S---ILWQLFGPFGAVTNVKVIRDFTTNKCKG  321 (360)
T ss_pred             cCCCccccccceeeeeccCCCCCCeeEEEEEecCCCchH---------h---HHHHHhCcccceeeEEEEecCCcccccc
Confidence             00        0000011222344689999998653332         2   2688999999999999999964 88999


Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          734 IQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       734 ~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ||||...+.++|..||..|||..++++.+.|...+.
T Consensus       322 fgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn  357 (360)
T KOG0145|consen  322 FGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN  357 (360)
T ss_pred             eeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence            999999999999999999999999999998876543

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

Probab=99.97  E-value=1.2e-29  Score=298.41  Aligned_cols=239  Identities=16%  Similarity=0.223  Sum_probs=193.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee-ccee
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS-GSIL  540 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~-Gr~l  540 (967)
                      .++|||+|||.+++|++|+++|+.||.+..+      .++++ .++.++|||||+|.+.++|..||+ ||+..|. |+.|
T Consensus        58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~v------rl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l  130 (578)
T TIGR01648        58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYEL------RLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLL  130 (578)
T ss_pred             CCEEEeCCCCCCCCHHHHHHHHHhhCCEEEE------EEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccc
Confidence            4799999999999999999999999974443      13355 779999999999999999999999 9998885 7777


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCC-eeEEEEee---cCCCCCCE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEV---NEDHEEPC  616 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~-V~~v~l~~---d~~~skG~  616 (967)
                      .|..                          ....++|||+|||..+++++|.++|++++. +..+.+..   +...++||
T Consensus       131 ~V~~--------------------------S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGF  184 (578)
T TIGR01648       131 GVCI--------------------------SVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGF  184 (578)
T ss_pred             cccc--------------------------cccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCce
Confidence            6652                          112578999999999999999999999863 44443332   23356999


Q ss_pred             EEEeecCcchHHHHHHHhCC--CccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCC
Q 002093          617 AFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFS  694 (967)
Q Consensus       617 aFVeF~~~e~A~~Al~~LnG--~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~  694 (967)
                      |||+|.+.++|..|+..|+.  ..+.|+.|.|.++.+......                ......++|+|.||....   
T Consensus       185 AFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~----------------~~~~~~k~LfVgNL~~~~---  245 (578)
T TIGR01648       185 AFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDE----------------DVMAKVKILYVRNLMTTT---  245 (578)
T ss_pred             EEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccc----------------cccccccEEEEeCCCCCC---
Confidence            99999999999999988864  467899999999976542110                001235789999986532   


Q ss_pred             CCChHHHHHHHHHHHHHHhcC--CCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          695 SLSELEVEEVLEDVRLECARF--GSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       695 ~i~~~~~eei~eDIr~~f~kF--G~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                        ++       ++|+++|++|  |.|+.|.+++       +||||+|.+.++|++|++.|||.+|.|+.+.|..+..
T Consensus       246 --te-------e~L~~~F~~f~~G~I~rV~~~r-------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp  306 (578)
T TIGR01648       246 --TE-------EIIEKSFSEFKPGKVERVKKIR-------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP  306 (578)
T ss_pred             --CH-------HHHHHHHHhcCCCceEEEEeec-------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence              33       5789999999  9999998875       5899999999999999999999999999999987743

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

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

Probab=99.97  E-value=1.7e-29  Score=275.58  Aligned_cols=241  Identities=17%  Similarity=0.208  Sum_probs=202.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee-ecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-SGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l-~Gr  538 (967)
                      ...+.||||.||-++.|++|.-||+..|++..+.      ++++...|.++|||||.|.+.++|..|+. ||+..| .|+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elR------LMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK  154 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELR------LMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGK  154 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEE------EeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCC
Confidence            3457899999999999999999999999866543      56788899999999999999999999999 999887 688


Q ss_pred             eeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCC-eeEEEEeec---CCCCC
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVN---EDHEE  614 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~-V~~v~l~~d---~~~sk  614 (967)
                      .|.|.-                          ....++|||||||.+.++++|.+.|++.+. |.+|.|...   +..++
T Consensus       155 ~igvc~--------------------------Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNR  208 (506)
T KOG0117|consen  155 LLGVCV--------------------------SVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNR  208 (506)
T ss_pred             EeEEEE--------------------------eeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCcccccccc
Confidence            888861                          224789999999999999999999999874 677777654   34579


Q ss_pred             CEEEEeecCcchHHHHHHHh-CC-CccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCC
Q 002093          615 PCAFIEYVDQLVTPKAIAGL-NG-LKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEG  692 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~L-nG-~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~  692 (967)
                      |||||+|.+...|..|...| +| +.+.|..|.|.||.|....-..                .-...+||+|.||...  
T Consensus       209 GFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded----------------~ms~VKvLYVRNL~~~--  270 (506)
T KOG0117|consen  209 GFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDED----------------TMSKVKVLYVRNLMES--  270 (506)
T ss_pred             ceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChh----------------hhhheeeeeeeccchh--
Confidence            99999999999999888777 44 6789999999999876432111                1134689999998642  


Q ss_pred             CCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          693 FSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       693 L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                                .+.|.|+.+|..||.|+.|+.++|       ||||.|.+.++|.+||+.|||.+|.|.++-+..+.
T Consensus       271 ----------tTeE~lk~~F~~~G~veRVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAK  329 (506)
T KOG0117|consen  271 ----------TTEETLKKLFNEFGKVERVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAK  329 (506)
T ss_pred             ----------hhHHHHHHHHHhccceEEeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEEEecC
Confidence                      223568999999999999999975       89999999999999999999999999999886653

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=99.96  E-value=1.7e-27  Score=281.17  Aligned_cols=278  Identities=19%  Similarity=0.258  Sum_probs=196.2

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--cee
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--SIL  540 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--r~l  540 (967)
                      .+|||+||++.+|+++|.++|+.||.+..+          .+......++|||+|.+.++|.+|++ |||..|.|  +.|
T Consensus        97 ~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v----------~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l  166 (481)
T TIGR01649        97 LRVIVENPMYPITLDVLYQIFNPYGKVLRI----------VTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNGCCTL  166 (481)
T ss_pred             EEEEEcCCCCCCCHHHHHHHHhccCCEEEE----------EEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCCceEE
Confidence            479999999999999999999999953332          11122334799999999999999999 99999865  466


Q ss_pred             EEeCCC--------------ccccccc-cccccc-------ccc------------------------------cC----
Q 002093          541 KIKRPK--------------EFVEVAS-GEAEKS-------VAS------------------------------VD----  564 (967)
Q Consensus       541 ~V~rp~--------------~~~~~~~-~~~~~~-------~~~------------------------------~~----  564 (967)
                      +|.+.+              +|..+.. +.....       ...                              .+    
T Consensus       167 ~v~~sk~~~l~v~~~~~~s~dyt~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~  246 (481)
T TIGR01649       167 KIEYAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPSSYGHDGYSSHGGPLAPLAGGDRMGPPHG  246 (481)
T ss_pred             EEEEecCCCceeEecccCCCCCcCCCCCCCCCCCcCccccccccccccCCCccCCCcccccCCCCCCcccccccCCCccc
Confidence            665432              1111100 000000       000                              00    


Q ss_pred             ------------C----c---CCcccCCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCc
Q 002093          565 ------------S----V---SGIVKDSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ  624 (967)
Q Consensus       565 ------------~----~---~~~~~~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~  624 (967)
                                  .    .   .........+|||+||+. .+|+++|+++|+.||.|..|.|+.+   .+|||||+|.+.
T Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~---~~g~afV~f~~~  323 (481)
T TIGR01649       247 PPSRYRPAYEAAPLAPAISSYGPAGGGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN---KKETALIEMADP  323 (481)
T ss_pred             CCCCCcccccccccCccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC---CCCEEEEEECCH
Confidence                        0    0   000012346999999997 6999999999999999999999887   579999999999


Q ss_pred             chHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCC-----CCC---CCCCC-------CCC-CCCCCCCCCeEEEccccC
Q 002093          625 LVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNS-----GNP---PFHGI-------PKH-ALPLLKKPTEVLKLKNVF  688 (967)
Q Consensus       625 e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~-----~~~---~~~~i-------~~~-~~~~~~~ps~vl~L~Nl~  688 (967)
                      ++|..|+..|||..|.|+.|.|.++..........     +..   .+.+.       +.. .......|+.+|+|.||.
T Consensus       324 ~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp  403 (481)
T TIGR01649       324 YQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIP  403 (481)
T ss_pred             HHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCC
Confidence            99999999999999999999999875432111000     000   00000       000 000123578899999996


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHHHhcCCC--eEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc-----
Q 002093          689 NPEGFSSLSELEVEEVLEDVRLECARFGS--VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKG-----  761 (967)
Q Consensus       689 ~~~~L~~i~~~~~eei~eDIr~~f~kFG~--V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~-----  761 (967)
                      .  .+   ++       ++|+++|+.||.  |..|+|.....+ .+++|||+|.+.++|.+|+..|||..|.++.     
T Consensus       404 ~--~~---te-------e~L~~lF~~~G~~~i~~ik~~~~~~~-~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~~  470 (481)
T TIGR01649       404 L--SV---SE-------EDLKELFAENGVHKVKKFKFFPKDNE-RSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAPY  470 (481)
T ss_pred             C--CC---CH-------HHHHHHHHhcCCccceEEEEecCCCC-cceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCccc
Confidence            4  22   33       578999999998  888988654444 4789999999999999999999999999996     


Q ss_pred             -ceeEEe
Q 002093          762 -ERLEEV  767 (967)
Q Consensus       762 -~~v~~~  767 (967)
                       ++|..+
T Consensus       471 ~lkv~fs  477 (481)
T TIGR01649       471 HLKVSFS  477 (481)
T ss_pred             eEEEEec
Confidence             666544

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

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

Probab=99.96  E-value=3.7e-28  Score=257.76  Aligned_cols=283  Identities=22%  Similarity=0.296  Sum_probs=216.9

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      +-.-.++||||.|.+.+.|+.|+..|.+||++..|+.      -.+..|+++||||||+|.-+|.|..|++ |||..++|
T Consensus       109 ALaiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInM------SWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGG  182 (544)
T KOG0124|consen  109 ALAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINM------SWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGG  182 (544)
T ss_pred             HHHHhHheeeeeeEEEechHHHHhhccCCCCcceeec------ccccccccccceEEEEEeCcHHHHHHHHHhccccccC
Confidence            3455789999999999999999999999998665432      3677889999999999999999999999 99999999


Q ss_pred             ceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCC
Q 002093          538 SILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEP  615 (967)
Q Consensus       538 r~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG  615 (967)
                      +.|+|++|.+....++....         -.......++|||..+.+.++++||+..|+.||.|..|.+.+++.  ..+|
T Consensus       183 RNiKVgrPsNmpQAQpiID~---------vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkG  253 (544)
T KOG0124|consen  183 RNIKVGRPSNMPQAQPIIDM---------VQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKG  253 (544)
T ss_pred             ccccccCCCCCcccchHHHH---------HHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccc
Confidence            99999988764322111000         001122458999999999999999999999999999999998853  4599


Q ss_pred             EEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCc----------C--------------------------CCC
Q 002093          616 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI----------M--------------------------DNS  659 (967)
Q Consensus       616 ~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~----------~--------------------------~~~  659 (967)
                      |+||+|.+..+...|+..||=+.++|+-|+|..+...+..          +                          ...
T Consensus       254 yGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTPP~aLl~Pat~s~~P~aaaVAaAAaTAKi~A~eAvAg~avlg~~  333 (544)
T KOG0124|consen  254 YGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDALLQPATVSAIPAAAAVAAAAATAKIMAAEAVAGSAVLGTV  333 (544)
T ss_pred             eeeEEeccccchHHHhhhcchhhcccceEecccccCCCchhcCCCCcccCchHHHHHHHHHHHHHHHHHHhccCCccccc
Confidence            9999999999999999999999999999999764211000          0                          000


Q ss_pred             CC---------------------------------CC-CCCCCCC-----------CC-------------------C--
Q 002093          660 GN---------------------------------PP-FHGIPKH-----------AL-------------------P--  673 (967)
Q Consensus       660 ~~---------------------------------~~-~~~i~~~-----------~~-------------------~--  673 (967)
                      +.                                 .+ .+.+|..           +.                   +  
T Consensus       334 G~~~~vSpA~~aa~p~~~l~qa~~a~~~pgvi~~vtP~~P~iP~~i~p~g~v~P~LA~ppT~g~L~kkkeKe~eelqpkl  413 (544)
T KOG0124|consen  334 GAPGLVSPAPRAAQPLGTLPQAVMAAQAPGVITGVTPARPPIPVTIPPVGVVNPILASPPTLGLLEKKKEKEEEELQPKL  413 (544)
T ss_pred             CCccccCccccccCCCCCccccchhccCCceeccCCCCCCCCCccCCCcceechhhcCCCchhhcchhhhhhHhhhcccc
Confidence            00                                 00 0001000           00                   0  


Q ss_pred             ---------------------------CCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC
Q 002093          674 ---------------------------LLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  726 (967)
Q Consensus       674 ---------------------------~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~  726 (967)
                                                 .-...++|++|.||++|.++   ++    .+..+|.++|.+||.|..|.|...
T Consensus       414 ~~~~~L~~QE~msI~G~sARhlvMqkLmR~~~S~VivLRNMV~P~Di---De----~LegEi~EECgKfG~V~rViI~ne  486 (544)
T KOG0124|consen  414 ERPEMLSEQEHMSISGSSARHLVMQKLMRKQESTVIVLRNMVDPKDI---DE----DLEGEITEECGKFGAVNRVIIYNE  486 (544)
T ss_pred             cCHHHhhhhhCccccCccHHHHHHHHHhccccCcEEEEeccCChhhh---hh----HHHHHHHHHHhcccceeEEEEEec
Confidence                                       01345789999999999886   33    456789999999999999999876


Q ss_pred             CCCC-----cceeEEEEeCCHHHHHHHHHHhCCCccCCCcce
Q 002093          727 GDSN-----ISTIQACEGNENTASAGVGQNLTNDETNEKGER  763 (967)
Q Consensus       727 ~~g~-----~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~  763 (967)
                      ..+.     +--..||+|....++.+|.++|+|+.|+|+..+
T Consensus       487 kq~e~edaeiiVKIFVefS~~~e~~rak~ALdGRfFgGr~Vv  528 (544)
T KOG0124|consen  487 KQGEEEDAEIIVKIFVEFSIASETHRAKQALDGRFFGGRKVV  528 (544)
T ss_pred             ccccccchhhhheeeeeechhhHHHHHHHhhccceecCceee
Confidence            4332     223579999999999999999999999999765

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.95  E-value=6.3e-27  Score=265.94  Aligned_cols=164  Identities=11%  Similarity=0.176  Sum_probs=140.1

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +..+|||+|||..+++++|+++|++||.|.+|+|+.++  +.++|||||+|.+.++|.+||..|||..|.|+.|.|.++.
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~   81 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR   81 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence            46799999999999999999999999999999999885  4578999999999999999999999999999999999986


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DS  729 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g  729 (967)
                      +....                     .....|+|.|+....     ++       ++|+.+|++||.|..+.|+.+. .+
T Consensus        82 ~~~~~---------------------~~~~~l~v~~l~~~~-----~~-------~~l~~~f~~~G~i~~~~~~~~~~~~  128 (352)
T TIGR01661        82 PSSDS---------------------IKGANLYVSGLPKTM-----TQ-------HELESIFSPFGQIITSRILSDNVTG  128 (352)
T ss_pred             ccccc---------------------cccceEEECCccccC-----CH-------HHHHHHHhccCCEEEEEEEecCCCC
Confidence            53211                     123468888886532     22       5789999999999999999874 67


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ..+|||||+|.+.++|+.|++.|||..+.+....+.....
T Consensus       129 ~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a  168 (352)
T TIGR01661       129 LSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFA  168 (352)
T ss_pred             CcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence            7899999999999999999999999999987665555444

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=99.95  E-value=9.7e-27  Score=262.90  Aligned_cols=241  Identities=18%  Similarity=0.238  Sum_probs=195.7

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      .||||   +.+||.+|.++|+++|.+..+      ..|.+. +  +-|||||.|.++++|.+||. ||...+.|++|+|.
T Consensus         3 sl~vg---~~v~e~~l~~~f~~~~~v~s~------rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim   70 (369)
T KOG0123|consen    3 SLYVG---PDVTEAMLFDKFSPAGPVLSI------RVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIM   70 (369)
T ss_pred             ceecC---CcCChHHHHHHhcccCCceeE------EEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEee
Confidence            59999   999999999999999974443      355666 5  99999999999999999999 99999999999998


Q ss_pred             CCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecC
Q 002093          544 RPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD  623 (967)
Q Consensus       544 rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~  623 (967)
                      |..                         ..+..|||.||++.++...|.++|+.||.|.+|+|..+.+.++|| ||+|.+
T Consensus        71 ~s~-------------------------rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~  124 (369)
T KOG0123|consen   71 WSQ-------------------------RDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFES  124 (369)
T ss_pred             hhc-------------------------cCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCC
Confidence            411                         112229999999999999999999999999999999998889999 999999


Q ss_pred             cchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHH
Q 002093          624 QLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEE  703 (967)
Q Consensus       624 ~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~ee  703 (967)
                      .+.|.+|+..|||..+.|+.|.|.......-....... ..           ..-+. +++.|..  .+   +++     
T Consensus       125 e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~-~~-----------~~~t~-v~vk~~~--~~---~~~-----  181 (369)
T KOG0123|consen  125 EESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE-YK-----------KRFTN-VYVKNLE--ED---STD-----  181 (369)
T ss_pred             HHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc-hh-----------hhhhh-hheeccc--cc---cch-----
Confidence            99999999999999999999999877554332211111 00           01111 2222222  11   122     


Q ss_pred             HHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          704 VLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       704 i~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                        +.|...|..||.|.++.|+++..|...||+||+|.+.++|..|+..|||..+.+..+-|....
T Consensus       182 --~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aq  244 (369)
T KOG0123|consen  182 --EELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQ  244 (369)
T ss_pred             --HHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCccceeecccc
Confidence              357889999999999999999999899999999999999999999999999998877775543

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=99.94  E-value=3.8e-26  Score=253.86  Aligned_cols=288  Identities=17%  Similarity=0.184  Sum_probs=210.0

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      .||||++||++++.++|.++|+.+|++....      .|.+...+.++|||||.|.-.+++..|+. +++..|.|+.|.|
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~------vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v   79 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAV------VVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNV   79 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeE------EecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccc
Confidence            5999999999999999999999999654421      22344556789999999999999999999 9999999999998


Q ss_pred             eCCCcccccccccccccccccCCcCC------cccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC-CCC
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVSG------IVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH-EEP  615 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~-skG  615 (967)
                      ..+....-+.......+.+....+.+      -+..+.-+|.|.|||+.+...+|+.+|+.||.|..|.|++..++ -.|
T Consensus        80 ~~A~~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcG  159 (678)
T KOG0127|consen   80 DPAKKRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCG  159 (678)
T ss_pred             ccccccccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccc
Confidence            74332221110000000010011111      11223568999999999999999999999999999999876543 269


Q ss_pred             EEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCC-------------------------------------
Q 002093          616 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDN-------------------------------------  658 (967)
Q Consensus       616 ~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~-------------------------------------  658 (967)
                      ||||+|....+|.+||+.+||..|+|++|-|-||.+.......                                     
T Consensus       160 FaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~  239 (678)
T KOG0127|consen  160 FAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDS  239 (678)
T ss_pred             eEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccccchhhhhhhhhccchhhhcccccccccccchhcccccc
Confidence            9999999999999999999999999999999998653221100                                     


Q ss_pred             ------CCCCC--------------CCCC--CCCCC----------CCCCCCCeEEEccccCCCCCCCCCChHHHHHHHH
Q 002093          659 ------SGNPP--------------FHGI--PKHAL----------PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLE  706 (967)
Q Consensus       659 ------~~~~~--------------~~~i--~~~~~----------~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~e  706 (967)
                            .++.-              +...  +....          .....-..+|+|.||.+-            ...|
T Consensus       240 edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD------------~tEE  307 (678)
T KOG0127|consen  240 EDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFD------------TTEE  307 (678)
T ss_pred             cccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCCcc------------ccHH
Confidence                  00000              0000  00000          001112368888888652            2336


Q ss_pred             HHHHHHhcCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHh-----CC-CccCCCcceeEEeec
Q 002093          707 DVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNL-----TN-DETNEKGERLEEVTD  769 (967)
Q Consensus       707 DIr~~f~kFG~V~~V~I~r~-~~g~~~G~gFVeF~~~e~A~~Ai~~L-----nG-~~~~~r~~~v~~~~~  769 (967)
                      .|.+.|.+||.|+.+.|+.+ .+|.++|.|||.|.+..+|.+||.+.     .| ..|.|+.++|..++-
T Consensus       308 el~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~Av~  377 (678)
T KOG0127|consen  308 ELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLAVT  377 (678)
T ss_pred             HHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeeccc
Confidence            78999999999999999987 48999999999999999999999988     23 778888888877654

>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=99.93  E-value=1.1e-25  Score=232.24  Aligned_cols=233  Identities=18%  Similarity=0.231  Sum_probs=174.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      +..++|||||||...+||+-|..||++.|.            |..+.+-         |.                   .
T Consensus         3 ~~~prtlyvgnld~~vte~~i~~lf~qig~------------v~~~k~i---------~~-------------------e   42 (321)
T KOG0148|consen    3 SDEPRTLYVGNLDSTVTEDFIATLFNQIGS------------VTKTKVI---------FD-------------------E   42 (321)
T ss_pred             CCCCceEEeeccChhhHHHHHHHHHHhccc------------cccceee---------hh-------------------h
Confidence            356789999999999999999999999883            3333321         11                   3


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCA  617 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~a  617 (967)
                      |+|.++..-     +.          .+......-.-+||+.|...++-++|++.|.+||.|.+++|++|..  .+|||+
T Consensus        43 ~~v~wa~~p-----~n----------Qsk~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYg  107 (321)
T KOG0148|consen   43 LKVNWATAP-----GN----------QSKPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYG  107 (321)
T ss_pred             hccccccCc-----cc----------CCCCccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCccccee
Confidence            455532211     00          0000011134699999999999999999999999999999999965  579999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLS  697 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~  697 (967)
                      ||.|.+.++|++||..|||+||++|.|+-.||.-.+..+. .....+..+    ...+....+.+++.|+..  -   |+
T Consensus       108 FVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n-~~~ltfdeV----~NQssp~NtsVY~G~I~~--~---lt  177 (321)
T KOG0148|consen  108 FVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMN-GKPLTFDEV----YNQSSPDNTSVYVGNIAS--G---LT  177 (321)
T ss_pred             EEeccchHHHHHHHHHhCCeeeccceeeccccccCccccC-CCCccHHHH----hccCCCCCceEEeCCcCc--c---cc
Confidence            9999999999999999999999999999999965442111 111111111    011123356677888765  2   24


Q ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          698 ELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       698 ~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +       ++|++.|++||.|..|.|.++     +||+||.|.+.|.|.+||..|||.+++|..++-.+..+
T Consensus       178 e-------~~mr~~Fs~fG~I~EVRvFk~-----qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  178 E-------DLMRQTFSPFGPIQEVRVFKD-----QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             H-------HHHHHhcccCCcceEEEEecc-----cceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence            4       468999999999999999985     79999999999999999999999999999888766554

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

Probab=99.93  E-value=2.4e-26  Score=244.04  Aligned_cols=174  Identities=16%  Similarity=0.210  Sum_probs=139.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      -++||||.|.+.+.++.|+..|..||+|++|.+-+|+-  ..+|||||+|.-++.|..|++.|||..++|+.|+|.....
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN  192 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN  192 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence            47899999999999999999999999999999988864  4599999999999999999999999999999999975422


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC-CC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-SN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~-g~  730 (967)
                      -+..+.     -+..++..     ...-..+|+..++.  +|   ++       +||+.+|+.||+|+.|+|.+.++ +.
T Consensus       193 mpQAQp-----iID~vqee-----Ak~fnRiYVaSvHp--DL---Se-------~DiKSVFEAFG~I~~C~LAr~pt~~~  250 (544)
T KOG0124|consen  193 MPQAQP-----IIDMVQEE-----AKKFNRIYVASVHP--DL---SE-------TDIKSVFEAFGEIVKCQLARAPTGRG  250 (544)
T ss_pred             Ccccch-----HHHHHHHH-----HHhhheEEeeecCC--Cc---cH-------HHHHHHHHhhcceeeEEeeccCCCCC
Confidence            111000     00000111     12234566666543  44   33       68999999999999999999875 45


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      .+|||||+|.+...-..|+..||-++|+|..++|+..+.
T Consensus       251 HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vT  289 (544)
T KOG0124|consen  251 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  289 (544)
T ss_pred             ccceeeEEeccccchHHHhhhcchhhcccceEecccccC
Confidence            899999999999999999999999999999999876543

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=99.93  E-value=5.9e-25  Score=239.04  Aligned_cols=168  Identities=23%  Similarity=0.336  Sum_probs=138.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC-ceeec
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSG  537 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng-~~l~G  537 (967)
                      +...-+||||-||..++|.||+.+|++||.+..|      +++.|..++.++|||||.|.+.++|.+|+. |++ +.|-|
T Consensus        31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~ei------nl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG  104 (510)
T KOG0144|consen   31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEI------NLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPG  104 (510)
T ss_pred             CchhhhheeccCCccccHHHHHHHHHHhCceeEE------EeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCC
Confidence            3455689999999999999999999999964443      356888999999999999999999999999 666 66666


Q ss_pred             --ceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCC
Q 002093          538 --SILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEE  614 (967)
Q Consensus       538 --r~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~sk  614 (967)
                        .+|.|+.         ...+...          ....++|||+.|+..+||.+|+++|++||.|++|+|.+|. +.++
T Consensus       105 ~~~pvqvk~---------Ad~E~er----------~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sR  165 (510)
T KOG0144|consen  105 MHHPVQVKY---------ADGERER----------IVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSR  165 (510)
T ss_pred             CCcceeecc---------cchhhhc----------cccchhhhhhhccccccHHHHHHHHHhhCccchhhheeccccccc
Confidence              4566652         1222111          1236799999999999999999999999999999999985 4689


Q ss_pred             CEEEEeecCcchHHHHHHHhCCC-cc--CCeEEEEEEcccC
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGL-KV--GGQVLTAVQAVLD  652 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~-~~--~Gr~I~V~~a~~~  652 (967)
                      |||||.|.+.+.|..|++.|||. .+  ...+|.|+||.+.
T Consensus       166 GcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtq  206 (510)
T KOG0144|consen  166 GCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQ  206 (510)
T ss_pred             ceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccC
Confidence            99999999999999999999994 44  4567999988543

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.92  E-value=5.2e-24  Score=239.59  Aligned_cols=168  Identities=19%  Similarity=0.241  Sum_probs=143.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+++|+++|+++|..||.+..+      .++.+..++.++|||||+|.+.++|..||+ |||..|.++
T Consensus       104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v------~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr  177 (346)
T TIGR01659       104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTC------RIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNK  177 (346)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCc
Confidence            4467899999999999999999999999964433      234666789999999999999999999998 999999999


Q ss_pred             eeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCE
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPC  616 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~  616 (967)
                      +|+|.++....                    ......+|||+|||..+|+++|+++|++||.|..|.|+.+.  +.++||
T Consensus       178 ~i~V~~a~p~~--------------------~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~  237 (346)
T TIGR01659       178 RLKVSYARPGG--------------------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGV  237 (346)
T ss_pred             eeeeecccccc--------------------cccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceE
Confidence            99998532110                    01124689999999999999999999999999999999884  456899


Q ss_pred             EEEeecCcchHHHHHHHhCCCccCC--eEEEEEEcccCC
Q 002093          617 AFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLDG  653 (967)
Q Consensus       617 aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~~~  653 (967)
                      |||+|.+.++|.+||+.|||..|.|  ++|+|.++....
T Consensus       238 aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~  276 (346)
T TIGR01659       238 AFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHG  276 (346)
T ss_pred             EEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCccc
Confidence            9999999999999999999998865  789999886543

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=99.90  E-value=5.2e-23  Score=232.71  Aligned_cols=273  Identities=16%  Similarity=0.173  Sum_probs=205.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      .+....|||.||++.++...|.++|+.||.+..+.       |.....| ++|| ||+|.+.+.|.+|+. +||..+.|+
T Consensus        73 ~rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~k-------v~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~k  143 (369)
T KOG0123|consen   73 QRDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCK-------VATDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGK  143 (369)
T ss_pred             ccCCceeeecCCCcccCcHHHHHHHHhhcCeeEEE-------EEEcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCC
Confidence            34444599999999999999999999999655432       1122223 8999 999999999999999 999999999


Q ss_pred             eeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEE
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCA  617 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~a  617 (967)
                      +|.|.........         ..+.  .. .......++|.+++..++++.|.++|..||.|.++.++.+.. .++||+
T Consensus       144 ki~vg~~~~~~er---------~~~~--~~-~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~g  211 (369)
T KOG0123|consen  144 KIYVGLFERKEER---------EAPL--GE-YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFG  211 (369)
T ss_pred             eeEEeeccchhhh---------cccc--cc-hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCcc
Confidence            9999843221111         0000  00 112346789999999999999999999999999999988854 369999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLS  697 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~  697 (967)
                      ||+|.++++|..|+..|+|..+++..+-|..+............ ++..  .............|++.|+-..     ++
T Consensus       212 fv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqkk~e~~~~l~~-~~~~--~~~~~~~~~~~~nl~vknld~~-----~~  283 (369)
T KOG0123|consen  212 FVNFENPEDAKKAVETLNGKIFGDKELYVGRAQKKSEREAELKR-KFEQ--EFAKRSVSLQGANLYVKNLDET-----LS  283 (369)
T ss_pred             ceeecChhHHHHHHHhccCCcCCccceeecccccchhhHHHHhh-hhHh--hhhhccccccccccccccCccc-----cc
Confidence            99999999999999999999999999999888552111000000 0000  0001111233456777774321     12


Q ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          698 ELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       698 ~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      +       +.++..|+.||+|.++.|..+..|.++|||||+|.+.++|.+|+..|||..+.++.+.+....
T Consensus       284 ~-------e~L~~~f~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~n~~~i~~k~l~vav~q  347 (369)
T KOG0123|consen  284 D-------EKLRKIFSSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEMNGRLIGGKPLYVAVAQ  347 (369)
T ss_pred             h-------hHHHHHHhcccceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhhChhhhcCCchhhhHHh
Confidence            2       467888999999999999999999999999999999999999999999999999998875543

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.88  E-value=6.4e-22  Score=222.71  Aligned_cols=163  Identities=13%  Similarity=0.210  Sum_probs=139.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+|+++|+++|+.||.|..|+|+.|..  .++|||||+|.+.++|.+||+.|||..|.+++|+|.++.
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~  185 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYAR  185 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccc
Confidence            468999999999999999999999999999999998854  468999999999999999999999999999999999886


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DS  729 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g  729 (967)
                      +....                     .....|+|.||...     +++       +||+++|++||.|+.|.|+++. ++
T Consensus       186 p~~~~---------------------~~~~~lfV~nLp~~-----vte-------e~L~~~F~~fG~V~~v~i~~d~~tg  232 (346)
T TIGR01659       186 PGGES---------------------IKDTNLYVTNLPRT-----ITD-------DQLDTIFGKYGQIVQKNILRDKLTG  232 (346)
T ss_pred             ccccc---------------------cccceeEEeCCCCc-----ccH-------HHHHHHHHhcCCEEEEEEeecCCCC
Confidence            53211                     12345888998542     232       5799999999999999999875 78


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      ..+|||||+|.+.++|++||+.|||..|.+....|.+.+
T Consensus       233 ~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~  271 (346)
T TIGR01659       233 TPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL  271 (346)
T ss_pred             ccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence            889999999999999999999999999988655554443

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

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

Probab=99.88  E-value=1.4e-21  Score=230.61  Aligned_cols=193  Identities=17%  Similarity=0.165  Sum_probs=141.3

Q ss_pred             HHHHHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcC
Q 002093          521 AEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFG  599 (967)
Q Consensus       521 ~e~A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G  599 (967)
                      .+.|.+||. ++|..+.........    -.+     .+.+      ....+...++|||+|||..+++++|+++|++||
T Consensus        19 ~~~a~~a~~~~~gy~~~~~~g~r~~----g~P-----p~~~------~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G   83 (578)
T TIGR01648        19 DEAALKALLERTGYTLVQENGQRKY----GGP-----PPGW------SGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAG   83 (578)
T ss_pred             cHHHHHHHHHhhCccccccCCcccC----CCC-----CCcc------cCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhC
Confidence            467888888 998777554443331    111     0000      111234468999999999999999999999999


Q ss_pred             CeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccC-CeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCC
Q 002093          600 PLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKK  677 (967)
Q Consensus       600 ~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~-Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~  677 (967)
                      .|.+|+|++|. +.++|||||+|.+.++|.+||+.|||..|. |+.|.|..+.                           
T Consensus        84 ~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~---------------------------  136 (578)
T TIGR01648        84 PIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV---------------------------  136 (578)
T ss_pred             CEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc---------------------------
Confidence            99999999883 457999999999999999999999999884 7777664431                           


Q ss_pred             CCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCC-eEEEEEe-cC-CCCCcceeEEEEeCCHHHHHHHHHHhCC
Q 002093          678 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS-VKSVNVV-KY-GDSNISTIQACEGNENTASAGVGQNLTN  754 (967)
Q Consensus       678 ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~-V~~V~I~-r~-~~g~~~G~gFVeF~~~e~A~~Ai~~LnG  754 (967)
                      ..+.|+|.||.....            .++|.++|.+|+. |+.+.+. .+ ..+...|||||+|.+.++|..|+..|+.
T Consensus       137 ~~~rLFVgNLP~~~T------------eeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~  204 (578)
T TIGR01648       137 DNCRLFVGGIPKNKK------------REEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMP  204 (578)
T ss_pred             cCceeEeecCCcchh------------hHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhc
Confidence            135688899865222            2568888999863 4444443 22 3466789999999999999999998864


Q ss_pred             C--ccCCCcceeEEe
Q 002093          755 D--ETNEKGERLEEV  767 (967)
Q Consensus       755 ~--~~~~r~~~v~~~  767 (967)
                      .  .+.++.+.|.+.
T Consensus       205 gki~l~Gr~I~VdwA  219 (578)
T TIGR01648       205 GRIQLWGHVIAVDWA  219 (578)
T ss_pred             cceEecCceEEEEee
Confidence            3  466777766554

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=99.88  E-value=2.2e-21  Score=216.25  Aligned_cols=186  Identities=13%  Similarity=0.173  Sum_probs=152.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      +.+|||++||+.++.++|.++|+.+|+|.++.++.++++  ++||+||.|.-.+++..|++.+++..|+|+.|.|..|.+
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~   84 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK   84 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence            479999999999999999999999999999999999775  599999999999999999999999999999999999876


Q ss_pred             CCCcCCC-CC-CCCCCCCCCC---CCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC
Q 002093          652 DGSIMDN-SG-NPPFHGIPKH---ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  726 (967)
Q Consensus       652 ~~~~~~~-~~-~~~~~~i~~~---~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~  726 (967)
                      ....... .+ +..+--....   .......+-+.|+|.||.....-            .||+.+|+.||.|..|+||+.
T Consensus        85 R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~------------~dLk~vFs~~G~V~Ei~IP~k  152 (678)
T KOG0127|consen   85 RARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKK------------PDLKNVFSNFGKVVEIVIPRK  152 (678)
T ss_pred             cccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCc------------HHHHHHHhhcceEEEEEcccC
Confidence            5543311 10 0000000000   01112334678999999775332            589999999999999999998


Q ss_pred             CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeeccc
Q 002093          727 GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHK  771 (967)
Q Consensus       727 ~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~  771 (967)
                      ..|..-|||||+|....+|.+|++.|||.+|.|+++.|-++.+..
T Consensus       153 ~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd  197 (678)
T KOG0127|consen  153 KDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD  197 (678)
T ss_pred             CCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence            888777999999999999999999999999999999999987754

>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=99.87  E-value=4.9e-22  Score=205.41  Aligned_cols=175  Identities=19%  Similarity=0.283  Sum_probs=146.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ---||||.|.+.++-+.|++.|.+||++...      ..|.|..|+++||||||.|...++|+.||. |||.-|.++.|+
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~a------kvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR  135 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDA------KVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIR  135 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccc------eEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence            4469999999999999999999999976654      356899999999999999999999999999 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEee
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEY  621 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF  621 (967)
                      -.|++-......+.    ...-..+-.......++||||||+..+|+++|++.|+.||.|..|+|.++    +||+||.|
T Consensus       136 TNWATRKp~e~n~~----~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~----qGYaFVrF  207 (321)
T KOG0148|consen  136 TNWATRKPSEMNGK----PLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD----QGYAFVRF  207 (321)
T ss_pred             ccccccCccccCCC----CccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc----cceEEEEe
Confidence            88654432110000    00011111222345789999999999999999999999999999999997    89999999


Q ss_pred             cCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          622 VDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       622 ~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .+.|.|..||..+||..++|..+++.|...
T Consensus       208 ~tkEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  208 ETKEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             cchhhHHHHHHHhcCceeCceEEEEecccc
Confidence            999999999999999999999999999754

>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=99.87  E-value=2.6e-21  Score=222.63  Aligned_cols=275  Identities=18%  Similarity=0.180  Sum_probs=203.4

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ..+..+.|+|+|||..+..++|...|..||.            |..+.+....-.|+|+|.++.+|.+|+. |....+..
T Consensus       381 ~~rs~~vil~kNlpa~t~~~elt~~F~~fG~------------i~rvllp~~G~~aiv~fl~p~eAr~Afrklaysr~k~  448 (725)
T KOG0110|consen  381 AERSDTVILVKNLPAGTLSEELTEAFLRFGE------------IGRVLLPPGGTGAIVEFLNPLEARKAFRKLAYSRFKS  448 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcccc------------cceeecCcccceeeeeecCccchHHHHHHhchhhhcc
Confidence            4456678999999999999999999999994            2233333333459999999999999999 99998888


Q ss_pred             ceeEEeCCCccccc--cc--------ccc-ccc-----ccccCCcC---------C-----cccCCCceEEEcCCCcccC
Q 002093          538 SILKIKRPKEFVEV--AS--------GEA-EKS-----VASVDSVS---------G-----IVKDSPHKIFIGGISRTLS  587 (967)
Q Consensus       538 r~l~V~rp~~~~~~--~~--------~~~-~~~-----~~~~~~~~---------~-----~~~~~~~~L~V~nLp~~~t  587 (967)
                      .+|.+.+...-.-+  +.        ... +..     ....+.+.         .     ......++|||.||++.+|
T Consensus       449 ~plyle~aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt  528 (725)
T KOG0110|consen  449 APLYLEWAPEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTT  528 (725)
T ss_pred             CccccccChhhhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccc
Confidence            88877653211111  00        000 000     00000000         0     0011224499999999999


Q ss_pred             HHHHHHHHHhcCCeeEEEEeecCC-----CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCC
Q 002093          588 SKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP  662 (967)
Q Consensus       588 eedL~e~Fsk~G~V~~v~l~~d~~-----~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~  662 (967)
                      .++|...|.++|.|.++.|..-++     .+.|||||+|.++++|..|+..|+|..+.|..|.|+++. +.. ....+  
T Consensus       529 ~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~-~k~-~~~~g--  604 (725)
T KOG0110|consen  529 LEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE-NKP-ASTVG--  604 (725)
T ss_pred             hhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc-Ccc-ccccc--
Confidence            999999999999999998865432     357999999999999999999999999999999999986 111 11111  


Q ss_pred             CCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-CCCCcceeEEEEeCC
Q 002093          663 PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNE  741 (967)
Q Consensus       663 ~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~~g~~~G~gFVeF~~  741 (967)
                        ...      .......-|.|.|+..            +....+|+++|.+||.|.+|.||+. ..+.+.|||||+|.+
T Consensus       605 --K~~------~~kk~~tKIlVRNipF------------eAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t  664 (725)
T KOG0110|consen  605 --KKK------SKKKKGTKILVRNIPF------------EATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLT  664 (725)
T ss_pred             --ccc------ccccccceeeeeccch------------HHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccC
Confidence              000      0112245677888755            4555789999999999999999987 455678999999999


Q ss_pred             HHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          742 NTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       742 ~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +.+|.+|+.+|.+.-|-|+-+++.++.+
T Consensus       665 ~~ea~nA~~al~STHlyGRrLVLEwA~~  692 (725)
T KOG0110|consen  665 PREAKNAFDALGSTHLYGRRLVLEWAKS  692 (725)
T ss_pred             cHHHHHHHHhhcccceechhhheehhcc
Confidence            9999999999999999999999988754

>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]

Probab=99.84  E-value=8.7e-21  Score=186.52  Aligned_cols=168  Identities=23%  Similarity=0.297  Sum_probs=140.7

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ...|||||||+..++++.|.++|-+.|++..+...      .+..+...+|||||+|.+.|+|+-|+. ||+..|.|++|
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iP------kDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpI   81 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIP------KDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPI   81 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecc------hhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCcee
Confidence            35699999999999999999999999865554222      344566789999999999999999999 99999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeecCC--CCCCEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVNED--HEEPCA  617 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d~~--~skG~a  617 (967)
                      +|..++..                   +...+...+|||+||.+.+++..|.+.|+.||++.. -.+.++..  .++||+
T Consensus        82 rv~kas~~-------------------~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g  142 (203)
T KOG0131|consen   82 RVNKASAH-------------------QKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFG  142 (203)
T ss_pred             EEEecccc-------------------cccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCe
Confidence            99854311                   111233478999999999999999999999999865 35666644  568999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ||-|.+.+.+.+|+..|||+.+..++|+|.++.....
T Consensus       143 ~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~  179 (203)
T KOG0131|consen  143 FINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDT  179 (203)
T ss_pred             EEechhHHHHHHHHHHhccchhcCCceEEEEEEecCC
Confidence            9999999999999999999999999999999976544

>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]

Probab=99.84  E-value=9.1e-20  Score=187.13  Aligned_cols=169  Identities=11%  Similarity=0.168  Sum_probs=140.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .+....|.|.-||..+|+++|+.+|...|.|++|++++|+  +.+-||+||.|.++.+|.+|+..|||..+..+.|+|.|
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy  117 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY  117 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence            4456789999999999999999999999999999999996  45689999999999999999999999999999999999


Q ss_pred             cccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-C
Q 002093          649 AVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-G  727 (967)
Q Consensus       649 a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~  727 (967)
                      |-|...... .                    .-|++..+.....            ..+|.++|.+||.|..-.|..+ -
T Consensus       118 ARPSs~~Ik-~--------------------aNLYvSGlPktMt------------qkelE~iFs~fGrIItSRiL~dqv  164 (360)
T KOG0145|consen  118 ARPSSDSIK-D--------------------ANLYVSGLPKTMT------------QKELEQIFSPFGRIITSRILVDQV  164 (360)
T ss_pred             ccCChhhhc-c--------------------cceEEecCCccch------------HHHHHHHHHHhhhhhhhhhhhhcc
Confidence            977543211 1                    1244444433222            2467888999999998888776 4


Q ss_pred             CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeecccc
Q 002093          728 DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKS  772 (967)
Q Consensus       728 ~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~~  772 (967)
                      +|.++|.|||.|...++|+.||..|||....|-+-.+.+...+.+
T Consensus       165 tg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP  209 (360)
T KOG0145|consen  165 TGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP  209 (360)
T ss_pred             cceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence            799999999999999999999999999999888777766666544

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=99.83  E-value=5.8e-20  Score=209.90  Aligned_cols=188  Identities=17%  Similarity=0.183  Sum_probs=139.1

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ..-..+.+||++||..+++.++.+++..||...++.      .|.+..+|.++||||++|.++..+..|++ |||+.+++
T Consensus       285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~------lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd  358 (500)
T KOG0120|consen  285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFR------LVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGD  358 (500)
T ss_pred             cccccchhhhccCcCccCHHHHHHHHHhcccchhhe------eecccccccccceeeeeeeCCcchhhhhcccchhhhcC
Confidence            345568899999999999999999999999766553      45777889999999999999999999999 99999999


Q ss_pred             ceeEEeCCCcccccccccccccc-cccCCcC---CcccCCCceEEEcCCC--cccC--------HHHHHHHHHhcCCeeE
Q 002093          538 SILKIKRPKEFVEVASGEAEKSV-ASVDSVS---GIVKDSPHKIFIGGIS--RTLS--------SKMVMEIVCAFGPLKA  603 (967)
Q Consensus       538 r~l~V~rp~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~L~V~nLp--~~~t--------eedL~e~Fsk~G~V~~  603 (967)
                      ++|.|+++......+........ +.++...   +....+...|++.|+=  ..+.        -++|+..|.+||.|..
T Consensus       359 ~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~  438 (500)
T KOG0120|consen  359 KKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRS  438 (500)
T ss_pred             ceeEeehhhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeE
Confidence            99999975432221111111000 1111111   1112234555555541  1111        1467788899999999


Q ss_pred             EEEeec-C----CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          604 YHFEVN-E----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       604 v~l~~d-~----~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      |.+.++ .    ..+.|.+||+|.++++|+.|+++|+|.+|+|+.|.+.|....
T Consensus       439 v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeD  492 (500)
T KOG0120|consen  439 VEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDED  492 (500)
T ss_pred             EecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHH
Confidence            999887 2    246899999999999999999999999999999999987543

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

Probab=99.78  E-value=1.3e-18  Score=190.79  Aligned_cols=170  Identities=17%  Similarity=0.243  Sum_probs=137.6

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH--ccC-ceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC--CDG-CSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~--lng-~~l~  536 (967)
                      +..+++|||||||.+.++++|.+.|+..++  ||..|... + .-....+++|||||+|.+..+|..|-.  ++| +.|+
T Consensus       161 Svan~RLFiG~IPK~k~keeIlee~~kVte--GVvdVivy-~-~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klw  236 (506)
T KOG0117|consen  161 SVANCRLFIGNIPKTKKKEEILEEMKKVTE--GVVDVIVY-P-SPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLW  236 (506)
T ss_pred             eeecceeEeccCCccccHHHHHHHHHhhCC--CeeEEEEe-c-CccccccccceEEEEeecchhHHHHHhhccCCceeec
Confidence            456899999999999999999999999874  44333110 0 111357889999999999999999998  777 8899


Q ss_pred             cceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCE
Q 002093          537 GSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC  616 (967)
Q Consensus       537 Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~  616 (967)
                      |..+.|.|+-....+    .           ..+...-..|||.||+..+|++.|+++|+.||.|..|..++|      |
T Consensus       237 gn~~tVdWAep~~e~----d-----------ed~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD------Y  295 (506)
T KOG0117|consen  237 GNAITVDWAEPEEEP----D-----------EDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD------Y  295 (506)
T ss_pred             CCcceeeccCcccCC----C-----------hhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc------e
Confidence            999999864221111    0           011223467999999999999999999999999999988766      9


Q ss_pred             EEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          617 AFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       617 aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      |||.|.+.++|.+|++.|||..|.|..|.|..|.|...
T Consensus       296 aFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k  333 (506)
T KOG0117|consen  296 AFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDK  333 (506)
T ss_pred             eEEeecchHHHHHHHHHhcCceecCceEEEEecCChhh
Confidence            99999999999999999999999999999999987543

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=99.77  E-value=1.3e-18  Score=189.91  Aligned_cols=157  Identities=18%  Similarity=0.225  Sum_probs=127.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCc-c--CCeEEEEEE
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLK-V--GGQVLTAVQ  648 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~-~--~Gr~I~V~~  648 (967)
                      .-+|||+.||..++|.||+++|++||.|..|.|++|+.  -++|||||.|.+.++|.+|+.+||.++ |  ...+|.|++
T Consensus        34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~  113 (510)
T KOG0144|consen   34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKY  113 (510)
T ss_pred             hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecc
Confidence            46899999999999999999999999999999999964  469999999999999999999999865 3  345678888


Q ss_pred             cccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC
Q 002093          649 AVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD  728 (967)
Q Consensus       649 a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~  728 (967)
                      |..+......                    .+.|+|.-+-.            ...+.+|+++|.+||.|+.|.|.+++.
T Consensus       114 Ad~E~er~~~--------------------e~KLFvg~lsK------------~~te~evr~iFs~fG~Ied~~ilrd~~  161 (510)
T KOG0144|consen  114 ADGERERIVE--------------------ERKLFVGMLSK------------QCTENEVREIFSRFGHIEDCYILRDPD  161 (510)
T ss_pred             cchhhhcccc--------------------chhhhhhhccc------------cccHHHHHHHHHhhCccchhhheeccc
Confidence            8655432211                    12222221111            123357999999999999999999999


Q ss_pred             CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcc
Q 002093          729 SNISTIQACEGNENTASAGVGQNLTNDETNEKGE  762 (967)
Q Consensus       729 g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~  762 (967)
                      +.++|++||+|.+.+.|..||++|||.....-|-
T Consensus       162 ~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs  195 (510)
T KOG0144|consen  162 GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCS  195 (510)
T ss_pred             ccccceeEEEEehHHHHHHHHHhhccceeeccCC
Confidence            9999999999999999999999999987654443

>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]

Probab=99.73  E-value=7e-18  Score=176.41  Aligned_cols=145  Identities=21%  Similarity=0.352  Sum_probs=128.9

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      +|||||||..+++.+|+.+|++||+            |+.|.+-  |.||||...+...|..|+. |+|..|.|..|.|.
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygk------------VlECDIv--KNYgFVHiEdktaaedairNLhgYtLhg~nInVe   69 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGK------------VLECDIV--KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVE   69 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCc------------eEeeeee--cccceEEeecccccHHHHhhcccceecceEEEEE
Confidence            7999999999999999999999994            4455443  7899999999999999999 99999999999998


Q ss_pred             CCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecC
Q 002093          544 RPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD  623 (967)
Q Consensus       544 rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~  623 (967)
                      ..+..                      .....+|+|+||.+.++.++|+..|++||+|..+.|++      +|+||.|.-
T Consensus        70 aSksK----------------------sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk------dy~fvh~d~  121 (346)
T KOG0109|consen   70 ASKSK----------------------SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK------DYAFVHFDR  121 (346)
T ss_pred             ecccc----------------------CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec------ceeEEEEee
Confidence            32211                      12357899999999999999999999999999999975      499999999


Q ss_pred             cchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          624 QLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       624 ~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|..|+..|+|..|.|+.+.|+.+..
T Consensus       122 ~eda~~air~l~~~~~~gk~m~vq~sts  149 (346)
T KOG0109|consen  122 AEDAVEAIRGLDNTEFQGKRMHVQLSTS  149 (346)
T ss_pred             ccchHHHHhcccccccccceeeeeeecc
Confidence            9999999999999999999999988754

>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]

Probab=99.71  E-value=3.4e-17  Score=171.26  Aligned_cols=150  Identities=19%  Similarity=0.298  Sum_probs=131.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      +.+|||+|||..+++.+|+.+|++||.|..|.|+++      ||||...+...|.-|+..|||..|.|..|.|..+....
T Consensus         2 ~~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs   75 (346)
T KOG0109|consen    2 PVKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS   75 (346)
T ss_pred             ccchhccCCCcccchHHHHHHHHhhCceEeeeeecc------cceEEeecccccHHHHhhcccceecceEEEEEeccccC
Confidence            357999999999999999999999999999999865      99999999999999999999999999999998774321


Q ss_pred             CcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcce
Q 002093          654 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIST  733 (967)
Q Consensus       654 ~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G  733 (967)
                                             +++..|.+.|+-..-.    +        .+++..|++||.|..+.|++       +
T Consensus        76 -----------------------k~stkl~vgNis~tct----n--------~ElRa~fe~ygpviecdivk-------d  113 (346)
T KOG0109|consen   76 -----------------------KASTKLHVGNISPTCT----N--------QELRAKFEKYGPVIECDIVK-------D  113 (346)
T ss_pred             -----------------------CCccccccCCCCcccc----C--------HHHhhhhcccCCceeeeeec-------c
Confidence                                   2455677777754322    1        35899999999999999986       6


Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeeccc
Q 002093          734 IQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHK  771 (967)
Q Consensus       734 ~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~~  771 (967)
                      |+||.|.-.++|..|+..|+|++|.|+.+.|+.+++..
T Consensus       114 y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrl  151 (346)
T KOG0109|consen  114 YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL  151 (346)
T ss_pred             eeEEEEeeccchHHHHhcccccccccceeeeeeecccc
Confidence            89999999999999999999999999999999998754

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=99.68  E-value=1e-15  Score=164.01  Aligned_cols=188  Identities=17%  Similarity=0.212  Sum_probs=146.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE--------EEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  643 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--------v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~  643 (967)
                      ....|||.|||..+|.+++.++|+++|.|..        |.|.++.. .-+|-|.|.|...+++..|++.|++..|.|+.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~  212 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK  212 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence            4566999999999999999999999998854        67777643 45999999999999999999999999999999


Q ss_pred             EEEEEcccCCCcC---CCCCC---CCC-----------CCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHH
Q 002093          644 LTAVQAVLDGSIM---DNSGN---PPF-----------HGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLE  706 (967)
Q Consensus       644 I~V~~a~~~~~~~---~~~~~---~~~-----------~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~e  706 (967)
                      |.|..|.-.....   .....   ...           .-.|.-..+......++|+|.|||++.++. -+++.+.+|.+
T Consensus       213 ~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~-~~~~l~~dlke  291 (382)
T KOG1548|consen  213 LRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFE-KNPDLLNDLKE  291 (382)
T ss_pred             EEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhc-cCHHHHHHHHH
Confidence            9999985432211   00000   000           001111112223457899999999999985 45577899999


Q ss_pred             HHHHHHhcCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeE
Q 002093          707 DVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLE  765 (967)
Q Consensus       707 DIr~~f~kFG~V~~V~I~r~-~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~  765 (967)
                      ||++.|++||.|.+|.|.-. +.|.    +-|.|.+.++|..||+.|+|+.|.|+.+.-.
T Consensus       292 dl~eec~K~G~v~~vvv~d~hPdGv----vtV~f~n~eeA~~ciq~m~GR~fdgRql~A~  347 (382)
T KOG1548|consen  292 DLTEECEKFGQVRKVVVYDRHPDGV----VTVSFRNNEEADQCIQTMDGRWFDGRQLTAS  347 (382)
T ss_pred             HHHHHHHHhCCcceEEEeccCCCce----eEEEeCChHHHHHHHHHhcCeeecceEEEEE
Confidence            99999999999999999843 4454    4499999999999999999999999987643

>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]

Probab=99.68  E-value=2.7e-16  Score=155.14  Aligned_cols=166  Identities=15%  Similarity=0.156  Sum_probs=135.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+||+..++++.|.++|-+.|+|..+++++|.-+  .+|||||+|.+.++|.-|++.||+.++.|++|+|..+
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka   86 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA   86 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence            34689999999999999999999999999999999998543  5999999999999999999999999999999999988


Q ss_pred             ccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEE-EEecCC-
Q 002093          650 VLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSV-NVVKYG-  727 (967)
Q Consensus       650 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V-~I~r~~-  727 (967)
                      ........                    -+.-|++.||-.  +   +++.       -+-.+|+.||.|... +|.+++ 
T Consensus        87 s~~~~nl~--------------------vganlfvgNLd~--~---vDe~-------~L~dtFsafG~l~~~P~i~rd~~  134 (203)
T KOG0131|consen   87 SAHQKNLD--------------------VGANLFVGNLDP--E---VDEK-------LLYDTFSAFGVLISPPKIMRDPD  134 (203)
T ss_pred             cccccccc--------------------ccccccccccCc--c---hhHH-------HHHHHHHhccccccCCccccccc
Confidence            63221110                    113466677643  1   2322       256679999988753 455654 


Q ss_pred             CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          728 DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       728 ~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +|..+|||||.|.+.+.+.+|+..|||.-++.+.+.+.....
T Consensus       135 tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k  176 (203)
T KOG0131|consen  135 TGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK  176 (203)
T ss_pred             CCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence            588899999999999999999999999999999999887765

>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=99.65  E-value=5.2e-16  Score=179.30  Aligned_cols=174  Identities=21%  Similarity=0.262  Sum_probs=135.1

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      .+|||.||++.+|.++|..+|...|.+..+...--.   ..+..-.|.|||||+|.++++|+.||. |+|..|.|..|.|
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkk---d~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~l  592 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKK---DPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLEL  592 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccc---cccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEE
Confidence            349999999999999999999998853332111000   000123466999999999999999999 9999999999999


Q ss_pred             eCCCcccccccccccccccccCCcCCccc-CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEE
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVSGIVK-DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFI  619 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFV  619 (967)
                      ....  ..+ .       ...+  ..... ...++|.|.|||+..+-.+|+++|..||.|.+|+|+.-.+  .++|||||
T Consensus       593 k~S~--~k~-~-------~~~g--K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv  660 (725)
T KOG0110|consen  593 KISE--NKP-A-------STVG--KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFV  660 (725)
T ss_pred             Eecc--Ccc-c-------cccc--cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceee
Confidence            8422  000 0       0000  11111 1247899999999999999999999999999999987633  45999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +|-++.+|.+|+.+|.+.-|.|+.|++.||...
T Consensus       661 ~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d  693 (725)
T KOG0110|consen  661 DFLTPREAKNAFDALGSTHLYGRRLVLEWAKSD  693 (725)
T ss_pred             eccCcHHHHHHHHhhcccceechhhheehhccc
Confidence            999999999999999999999999999999543

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=99.63  E-value=1.5e-14  Score=157.55  Aligned_cols=278  Identities=18%  Similarity=0.234  Sum_probs=180.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC--ceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng--~~l~G  537 (967)
                      .+++-|.++|||.++||++|..++.+||.+            ........+..|||+|.+.+.|...+. ...  -.+.|
T Consensus        26 ~pSkV~HlRnlp~e~tE~elI~Lg~pFG~v------------tn~~~lkGknQAflem~d~~sAvtmv~~y~~~~p~lr~   93 (492)
T KOG1190|consen   26 EPSKVVHLRNLPWEVTEEELISLGLPFGKV------------TNLLMLKGKNQAFLEMADEESAVTMVNYYTSVTPVLRG   93 (492)
T ss_pred             CCcceeEeccCCccccHHHHHHhcccccce------------eeeeeeccchhhhhhhcchhhhhheeecccccCccccC
Confidence            456789999999999999999999999953            344444556799999999998877443 222  44678


Q ss_pred             ceeEEeCCCc--ccc-cccc-------------ccccccccc--CCcCCcccCCC---ceEEEcCCCcccCHHHHHHHHH
Q 002093          538 SILKIKRPKE--FVE-VASG-------------EAEKSVASV--DSVSGIVKDSP---HKIFIGGISRTLSSKMVMEIVC  596 (967)
Q Consensus       538 r~l~V~rp~~--~~~-~~~~-------------~~~~~~~~~--~~~~~~~~~~~---~~L~V~nLp~~~teedL~e~Fs  596 (967)
                      ++|.|+..+.  +.. ..+.             ..+......  ....+ ..+.+   -.++|.++-..++-+-|..+|+
T Consensus        94 ~~~yiq~sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G-~~~~~n~vLr~iie~m~ypVslDVLHqvFS  172 (492)
T KOG1190|consen   94 QPIYIQYSNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVG-NEDGPNPVLRTIIENMFYPVSLDVLHQVFS  172 (492)
T ss_pred             cceeehhhhHHHHhccCchhhhhhhhHHhhhhccccccccccccccccc-ccCCCceeEEEEeccceeeeEHHHHHHHHh
Confidence            8888874221  000 0000             000000000  01101 11222   3567889999999999999999


Q ss_pred             hcCCeeEEEEeecCCCCCC-EEEEeecCcchHHHHHHHhCCCcc--CCeEEEEEEcccCCCcCC---------CCCCCC-
Q 002093          597 AFGPLKAYHFEVNEDHEEP-CAFIEYVDQLVTPKAIAGLNGLKV--GGQVLTAVQAVLDGSIMD---------NSGNPP-  663 (967)
Q Consensus       597 k~G~V~~v~l~~d~~~skG-~aFVeF~~~e~A~~Al~~LnG~~~--~Gr~I~V~~a~~~~~~~~---------~~~~~~-  663 (967)
                      +||.|..|.-...   +.| -|.|+|.+.+.|..|..+|+|+.|  +-+.|+|.++.-......         .+..++ 
T Consensus       173 ~fG~VlKIiTF~K---nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkSRDyTnp~LP~  249 (492)
T KOG1190|consen  173 KFGFVLKIITFTK---NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKSRDYTNPDLPV  249 (492)
T ss_pred             hcceeEEEEEEec---ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccccccccccCCCCCC
Confidence            9999977643332   233 589999999999999999999887  455677766522110000         000000 


Q ss_pred             --------------C----------CCCCCCCC------CCCCCC--CeEEEccccCCCCCCCCCChHHHHHHHHHHHHH
Q 002093          664 --------------F----------HGIPKHAL------PLLKKP--TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLE  711 (967)
Q Consensus       664 --------------~----------~~i~~~~~------~~~~~p--s~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~  711 (967)
                                    +          ..+|....      ...+.+  +.+|.+.|+-. +.   +++       +-|..+
T Consensus       250 gd~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~~~~~~~~~n~vllvsnln~-~~---VT~-------d~Lftl  318 (492)
T KOG1190|consen  250 GDGQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAADGKIESPSANVVLLVSNLNE-EA---VTP-------DVLFTL  318 (492)
T ss_pred             CccccccchhhhccccccccccCCcccCCccchhhcccccccccCCCceEEEEecCch-hc---cch-------hHHHHH
Confidence                          0          01111110      112223  46777777632 11   122       346889


Q ss_pred             HhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          712 CARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       712 f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      |.-||.|..|+|..+..    --|.|+|.+...|+-|+..|+|-.+-|+.++|..+..
T Consensus       319 FgvYGdVqRVkil~nkk----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH  372 (492)
T KOG1190|consen  319 FGVYGDVQRVKILYNKK----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKH  372 (492)
T ss_pred             HhhhcceEEEEeeecCC----cceeeeecchhHHHHHHHHhhcceecCceEEEeeccC
Confidence            99999999999998653    2367999999999999999999999999999888765

>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]

Probab=99.59  E-value=1.9e-14  Score=147.65  Aligned_cols=177  Identities=23%  Similarity=0.312  Sum_probs=136.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHH----HHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          461 RPMRRLCVENLPLSASEKALME----FLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~----~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      .++.||||.||+..+..++|+.    +|++||.+..         |+-+.+.+.+|.|||.|.+.+.|..|+. |+|+.|
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ild---------I~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpF   77 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILD---------ISAFKTPKMRGQAFVVFKETEAASAALRALQGFPF   77 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEE---------EEecCCCCccCceEEEecChhHHHHHHHHhcCCcc
Confidence            4455999999999999998887    9999996433         3556788899999999999999999999 999999


Q ss_pred             ecceeEEeCCCccccc---ccccc---------cccc------cccC--------CcC----CcccCCCceEEEcCCCcc
Q 002093          536 SGSILKIKRPKEFVEV---ASGEA---------EKSV------ASVD--------SVS----GIVKDSPHKIFIGGISRT  585 (967)
Q Consensus       536 ~Gr~l~V~rp~~~~~~---~~~~~---------~~~~------~~~~--------~~~----~~~~~~~~~L~V~nLp~~  585 (967)
                      .|++|+|++++.-.+-   ..+..         +...      ...+        ..+    .....+...||+.|||..
T Consensus        78 ygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~e  157 (221)
T KOG4206|consen   78 YGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSE  157 (221)
T ss_pred             cCchhheecccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcc
Confidence            9999999986543322   01000         0000      0000        000    111234578999999999


Q ss_pred             cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC-CeEEEEEEc
Q 002093          586 LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQA  649 (967)
Q Consensus       586 ~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~-Gr~I~V~~a  649 (967)
                      ++.+.|..+|+.|.....|+++..   -.+.|||+|.+...|..|...|.|..+- ...+.|.++
T Consensus       158 s~~e~l~~lf~qf~g~keir~i~~---~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a  219 (221)
T KOG4206|consen  158 SESEMLSDLFEQFPGFKEIRLIPP---RSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFA  219 (221)
T ss_pred             hhHHHHHHHHhhCcccceeEeccC---CCceeEEecchhhhhHHHhhhhccceeccCceEEeccc
Confidence            999999999999999999999775   5889999999999999999999998875 667777665

>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]

Probab=99.55  E-value=6.7e-14  Score=138.03  Aligned_cols=165  Identities=20%  Similarity=0.230  Sum_probs=124.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      +..++|||||||.++-+.+|.+||.+||.+..          ++.+. .....||||+|.++-+|+-|+. .+|..+.|.
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~----------ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~   73 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIRE----------IELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGC   73 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhhcceEE----------EEeccCCCCCCeeEEEecCccchhhhhhcccccccCcc
Confidence            56789999999999999999999999995222          12222 2235799999999999999999 999999999


Q ss_pred             eeEEeCCCcccccccccccccccccC------CcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVD------SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH  612 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~  612 (967)
                      .|+|..|..+-.........+....+      .-....-.+...|.|.+||.+.+++||++...+.|.|....+.+|   
T Consensus        74 rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD---  150 (241)
T KOG0105|consen   74 RLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD---  150 (241)
T ss_pred             eEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc---
Confidence            99999766543210000000000000      001112234578999999999999999999999999998888776   


Q ss_pred             CCCEEEEeecCcchHHHHHHHhCCCccC
Q 002093          613 EEPCAFIEYVDQLVTPKAIAGLNGLKVG  640 (967)
Q Consensus       613 skG~aFVeF~~~e~A~~Al~~LnG~~~~  640 (967)
                        |++.|+|...++..-|+..|....|.
T Consensus       151 --g~GvV~~~r~eDMkYAvr~ld~~~~~  176 (241)
T KOG0105|consen  151 --GVGVVEYLRKEDMKYAVRKLDDQKFR  176 (241)
T ss_pred             --cceeeeeeehhhHHHHHHhhcccccc
Confidence              69999999999999999999887663

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=99.52  E-value=1.9e-14  Score=158.17  Aligned_cols=173  Identities=17%  Similarity=0.222  Sum_probs=141.1

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++||||+|+..+|++.|++.|.+||++..+.      .+.+..+++++||+||+|.+++.+..+|...-..|.|+.|.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~------vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve   78 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCV------VMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVE   78 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEE------EeccCCCCCcccccceecCCCcchheeecccccccCCcccc
Confidence            568999999999999999999999999755431      34566779999999999999999999998777888898888


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEE
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFI  619 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFV  619 (967)
                      +.++.....+.     .         ........+|||++||..++++++++.|++||.|..+.++.|..+  .+||+||
T Consensus        79 ~k~av~r~~~~-----~---------~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv  144 (311)
T KOG4205|consen   79 PKRAVSREDQT-----K---------VGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFV  144 (311)
T ss_pred             ceeccCccccc-----c---------cccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceee
Confidence            77432211110     0         000113568999999999999999999999999999888888654  5999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  655 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~  655 (967)
                      .|.+.+.+.+++. ..-+.|+|+.+.|..|.|....
T Consensus       145 ~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk~~~  179 (311)
T KOG4205|consen  145 TFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPKEVM  179 (311)
T ss_pred             Eeccccccceecc-cceeeecCceeeEeeccchhhc
Confidence            9999999999986 7789999999999999886543

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=99.48  E-value=3.8e-12  Score=139.02  Aligned_cols=274  Identities=18%  Similarity=0.255  Sum_probs=186.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeee-ecCCCcE-EEEEEcCHHHHHHHHH-ccCceee-c-
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV-IQREKGQ-AFVEFLTAEDASAALC-CDGCSFS-G-  537 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~-~~~skG~-aFVeF~~~e~A~~Al~-lng~~l~-G-  537 (967)
                      --+++|+|+-+-+|-+-|..+|+.||.+            ..+. ..++.|| |.|+|.+++.|..|.. |+|..+. | 
T Consensus       150 vLr~iie~m~ypVslDVLHqvFS~fG~V------------lKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngc  217 (492)
T KOG1190|consen  150 VLRTIIENMFYPVSLDVLHQVFSKFGFV------------LKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGC  217 (492)
T ss_pred             eEEEEeccceeeeEHHHHHHHHhhccee------------EEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCce
Confidence            3467899999999999999999999942            2332 2456676 9999999999999999 9997763 3 


Q ss_pred             ceeEEeCC--------------Cccccc--ccccccccc-----c----------ccCCc-----------CCcccC-CC
Q 002093          538 SILKIKRP--------------KEFVEV--ASGEAEKSV-----A----------SVDSV-----------SGIVKD-SP  574 (967)
Q Consensus       538 r~l~V~rp--------------~~~~~~--~~~~~~~~~-----~----------~~~~~-----------~~~~~~-~~  574 (967)
                      +.|+|...              .||..+  +.+..++..     +          .+..+           +..... ..
T Consensus       218 CtLrId~Sklt~LnvKynndkSRDyTnp~LP~gd~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~~~~~~~~~n  297 (492)
T KOG1190|consen  218 CTLRIDFSKLTDLNVKYNNDKSRDYTNPDLPVGDGQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAADGKIESPSAN  297 (492)
T ss_pred             eEEEeehhhcccceeeccccccccccCCCCCCCccccccchhhhccccccccccCCcccCCccchhhcccccccccCCCc
Confidence            45666431              123322  111000000     0          00000           001111 14


Q ss_pred             ceEEEcCCC-cccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          575 HKIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       575 ~~L~V~nLp-~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      ..|.|.||. ..+|.+-|..+|.-||.|..|.|..+   .+--|.|+|.+...|..|+..|+|+.+.|+.|+|.++.-..
T Consensus       298 ~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~n---kkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~  374 (492)
T KOG1190|consen  298 VVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYN---KKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTN  374 (492)
T ss_pred             eEEEEecCchhccchhHHHHHHhhhcceEEEEeeec---CCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcc
Confidence            678888886 56899999999999999999999887   35689999999999999999999999999999999985443


Q ss_pred             CcCCCC-----------CCCCCCCC--CCCCC-CCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeE
Q 002093          654 SIMDNS-----------GNPPFHGI--PKHAL-PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVK  719 (967)
Q Consensus       654 ~~~~~~-----------~~~~~~~i--~~~~~-~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~  719 (967)
                      ......           ++.++...  |.... .....|+..|.|.|+...-.            +||++..|..-|-..
T Consensus       375 vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svs------------ee~lk~~f~~~g~~v  442 (492)
T KOG1190|consen  375 VQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVS------------EEDLKNLFQEPGGQV  442 (492)
T ss_pred             ccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccc------------hhHHHHhhhcCCceE
Confidence            322211           11111111  11111 11346778899999865322            268999998877654


Q ss_pred             E-EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCC-cceeEEe
Q 002093          720 S-VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEK-GERLEEV  767 (967)
Q Consensus       720 ~-V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r-~~~v~~~  767 (967)
                      + .+...    ...-++++++.+.|+|..|+..|+...+++. -++|..+
T Consensus       443 kafkff~----kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFS  488 (492)
T KOG1190|consen  443 KAFKFFQ----KDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFS  488 (492)
T ss_pred             EeeeecC----CCcceeecccCChhHhhhhccccccccCCCCceEEEEee
Confidence            3 33322    2345789999999999999999999999887 3445443

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

Probab=99.47  E-value=8.7e-14  Score=143.94  Aligned_cols=78  Identities=15%  Similarity=0.315  Sum_probs=71.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||-.||....+.+|..+|-.||.|.+.+|..|.  +.+|.|+||.|.++.+|+.||.+|||+.|+-+.|+|+.--|
T Consensus       285 GCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP  364 (371)
T KOG0146|consen  285 GCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP  364 (371)
T ss_pred             cceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence            4789999999999999999999999999998887775  45799999999999999999999999999999999976544

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

Probab=99.45  E-value=2.1e-12  Score=144.55  Aligned_cols=168  Identities=18%  Similarity=0.240  Sum_probs=128.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .--|-+.+||.++|+++|.+||+.++    |..     .++.+.+++..|-|||+|.+.+++.+||+.+-..+..+-|.|
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~----I~~-----~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEV   80 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCG----IEN-----LEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEV   80 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCc----eeE-----EEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEE
Confidence            34678899999999999999998876    332     346667799999999999999999999999999999999999


Q ss_pred             eCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeecC-CCCCCEEEEe
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVNE-DHEEPCAFIE  620 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d~-~~skG~aFVe  620 (967)
                      -....        .+..+... ..+.........|-+.+||+.+|++||.+||+-.-.|.. |.++.+. ....|-|||+
T Consensus        81 f~~~~--------~e~d~~~~-~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVq  151 (510)
T KOG4211|consen   81 FTAGG--------AEADWVMR-PGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQ  151 (510)
T ss_pred             EccCC--------cccccccc-CCCCCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEE
Confidence            73211        01111100 011111134567889999999999999999998777766 5566663 4568999999


Q ss_pred             ecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      |.+.+.|++||. -|-..|+-+-|.|-.+
T Consensus       152 F~sqe~ae~Al~-rhre~iGhRYIEvF~S  179 (510)
T KOG4211|consen  152 FESQESAEIALG-RHRENIGHRYIEVFRS  179 (510)
T ss_pred             ecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence            999999999996 5667788888888654

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

Probab=99.43  E-value=7.9e-13  Score=136.96  Aligned_cols=77  Identities=21%  Similarity=0.371  Sum_probs=67.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCC-ccC--CeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGL-KVG--GQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~-~~~--Gr~I~V~~  648 (967)
                      ..++||||-|...-.|+|++.+|..||.|..|.+.+.. +.+||||||.|.+..+|..||..|||. .+-  .-.|.|++
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~   97 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF   97 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence            45789999999999999999999999999999998875 568999999999999999999999994 343  34578877


Q ss_pred             c
Q 002093          649 A  649 (967)
Q Consensus       649 a  649 (967)
                      +
T Consensus        98 A   98 (371)
T KOG0146|consen   98 A   98 (371)
T ss_pred             c
Confidence            6

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=99.41  E-value=4.2e-12  Score=136.55  Aligned_cols=185  Identities=15%  Similarity=0.183  Sum_probs=133.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeee---ecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV---IQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~---~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ..+..|||.|||.++|.+++.++|+.||.+..  .++...|-+..+   .|.-+|=|.|.|...+++..|+. |++..|.
T Consensus       132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~--d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r  209 (382)
T KOG1548|consen  132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMR--DPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELR  209 (382)
T ss_pred             ccCceEEecCCCCcccHHHHHHHHHhcceEec--cCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCccccc
Confidence            34557999999999999999999999995332  334444444443   37778999999999999999999 9999999


Q ss_pred             cceeEEeCCCc-----cccccccc-ccc------cccc------cCCcCCcccCCCceEEEcCCCc----ccC-------
Q 002093          537 GSILKIKRPKE-----FVEVASGE-AEK------SVAS------VDSVSGIVKDSPHKIFIGGISR----TLS-------  587 (967)
Q Consensus       537 Gr~l~V~rp~~-----~~~~~~~~-~~~------~~~~------~~~~~~~~~~~~~~L~V~nLp~----~~t-------  587 (967)
                      |+.|+|.+++-     |.+..-.. ...      ....      +............+|.|.|+-.    ..+       
T Consensus       210 g~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dl  289 (382)
T KOG1548|consen  210 GKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDL  289 (382)
T ss_pred             CcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHH
Confidence            99999998652     22110000 000      0000      0001111223457888888731    122       


Q ss_pred             HHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          588 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       588 eedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|.+.|++||.|..|.|.-.  ...|.+-|.|.+.++|..||+.|+|++|+||.|.+..-
T Consensus       290 kedl~eec~K~G~v~~vvv~d~--hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~  349 (382)
T KOG1548|consen  290 KEDLTEECEKFGQVRKVVVYDR--HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIW  349 (382)
T ss_pred             HHHHHHHHHHhCCcceEEEecc--CCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEe
Confidence            4678899999999999877432  25899999999999999999999999999999998654

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.40  E-value=2.8e-11  Score=130.70  Aligned_cols=262  Identities=19%  Similarity=0.131  Sum_probs=186.0

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH---ccCceeecce
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSFSGSI  539 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~---lng~~l~Gr~  539 (967)
                      +-.|.|++|...++|.+|.+.++.||            +|..+.....+..|.|+|.+.+.|..|+.   -|...+.|+.
T Consensus        31 spvvhvr~l~~~v~eadl~eal~~fG------------~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~   98 (494)
T KOG1456|consen   31 SPVVHVRGLHQGVVEADLVEALSNFG------------PIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQ   98 (494)
T ss_pred             CceEEEeccccccchhHHHHHHhcCC------------ceEEEEeccccceeeeeeccccchhhheehhccCcccccCch
Confidence            34799999999999999999999999            55667777888999999999999999987   4456667766


Q ss_pred             eEEeCCC-cccccccccccccccccCCcCCcccCCCce-EE--EcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCC
Q 002093          540 LKIKRPK-EFVEVASGEAEKSVASVDSVSGIVKDSPHK-IF--IGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP  615 (967)
Q Consensus       540 l~V~rp~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-L~--V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG  615 (967)
                      --+...+ +.+..           +   + .....++. |.  |-|--..+|.+-|..+|...|+|..|.|.+.   .--
T Consensus        99 Al~NyStsq~i~R-----------~---g-~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk---ngV  160 (494)
T KOG1456|consen   99 ALFNYSTSQCIER-----------P---G-DESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK---NGV  160 (494)
T ss_pred             hhcccchhhhhcc-----------C---C-CCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec---cce
Confidence            5554211 00000           0   0 01112333 33  3344467899999999999999999988775   234


Q ss_pred             EEEEeecCcchHHHHHHHhCCCcc--CCeEEEEEEcccCCCcCC------------------CCCCC--------CC---
Q 002093          616 CAFIEYVDQLVTPKAIAGLNGLKV--GGQVLTAVQAVLDGSIMD------------------NSGNP--------PF---  664 (967)
Q Consensus       616 ~aFVeF~~~e~A~~Al~~LnG~~~--~Gr~I~V~~a~~~~~~~~------------------~~~~~--------~~---  664 (967)
                      .|.|||.+.+.|++|.++|||..|  +-..|+|.||.|......                  ..+..        ..   
T Consensus       161 QAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV~knd~DtwDyTlp~~~~~~~~g~~~~~r~~~p~~~~~  240 (494)
T KOG1456|consen  161 QAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNVQKNDKDTWDYTLPDLRGPYDPGRNHYDRQRQPAPLGY  240 (494)
T ss_pred             eeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeeeeecCCccccccCCCCCCCCCCCCCCCccccCCCccCC
Confidence            799999999999999999999766  677899999977532100                  00000        00   


Q ss_pred             -----CC-----------CCC----------------CCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHH
Q 002093          665 -----HG-----------IPK----------------HALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLEC  712 (967)
Q Consensus       665 -----~~-----------i~~----------------~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f  712 (967)
                           .+           -|.                .+.+....+..|+.+..|--   .        ....+-|..+|
T Consensus       241 ~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~g~VmMVyGLdh---~--------k~N~drlFNl~  309 (494)
T KOG1456|consen  241 HPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRDGRGYASPGGGAPGCVMMVYGLDH---G--------KMNCDRLFNLF  309 (494)
T ss_pred             ChhhcCCCCCCCcccccCCCCCCCCCCCccccccCCCCCCCCCCCCCcEEEEEeccc---c--------ccchhhhhhhh
Confidence                 00           000                01122345677887776521   1        11235578899


Q ss_pred             hcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          713 ARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       713 ~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ..||.|+.|++++..+    |.|.|+..+..+.++|+.-||+-.+-|..+.+..+..
T Consensus       310 ClYGNV~rvkFmkTk~----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ  362 (494)
T KOG1456|consen  310 CLYGNVERVKFMKTKP----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ  362 (494)
T ss_pred             hhcCceeeEEEeeccc----ceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence            9999999999998654    4567999999999999999999999988888776654

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

Probab=99.36  E-value=5.5e-12  Score=138.23  Aligned_cols=247  Identities=13%  Similarity=0.026  Sum_probs=176.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...+.+||.|||+++...+|++||..-.  -.+..++    ++-...++++|+|.|||.++|.+++|++ ||...+.|++
T Consensus        42 ~r~R~vfItNIpyd~rWqdLKdLvrekv--Gev~yve----Ll~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~  115 (608)
T KOG4212|consen   42 ARDRSVFITNIPYDYRWQDLKDLVREKV--GEVEYVE----LLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRE  115 (608)
T ss_pred             cccceEEEecCcchhhhHhHHHHHHHhc--CceEeee----eecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCce
Confidence            4556799999999999999999997532  1233332    2344568999999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAF  618 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~aF  618 (967)
                      |.|.-..+-.-.+.             ..+ .......|++++...+-..-|...|.--|.+..-.+.+|.+ .+++..|
T Consensus       116 l~vKEd~d~q~~~~-------------~~~-~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t  181 (608)
T KOG4212|consen  116 LVVKEDHDEQRDQY-------------GRI-VRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNT  181 (608)
T ss_pred             EEEeccCchhhhhh-------------hhe-eeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCc
Confidence            99983222111000             011 11245688899988888888888887777665555555643 5789999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCCh
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSE  698 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~  698 (967)
                      +.|.+.-.+..++..+++...--+++.+ +.                          +.-...++|.||-...     ..
T Consensus       182 ~t~~~~~~~~~~~~lfgl~~~Flr~~h~-f~--------------------------pPl~~k~fvanl~~~v-----g~  229 (608)
T KOG4212|consen  182 NTMSNDYNNSSNYNLFGLSASFLRSLHI-FS--------------------------PPLHNKVFVANLDYKV-----GN  229 (608)
T ss_pred             cccccccccchhhhcccchhhhhhhccC-CC--------------------------CCccceeeeecccccc-----ch
Confidence            9999888888887755554333333321 11                          0011223466664321     21


Q ss_pred             HHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEE
Q 002093          699 LEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  766 (967)
Q Consensus       699 ~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~  766 (967)
                             ..|++.|.--|.|++|.+--+..|.+.||+.|+|..+-+|.+||..|++--+.++...+..
T Consensus       230 -------~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl  290 (608)
T KOG4212|consen  230 -------KKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRL  290 (608)
T ss_pred             -------HHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhccCCCccccceeec
Confidence                   3578888889999999988888888999999999999999999999998777777666543

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.35  E-value=4.1e-12  Score=126.30  Aligned_cols=82  Identities=21%  Similarity=0.352  Sum_probs=75.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|..|++.|||..|+|+.|.|.++.
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            467899999999999999999999999999999998853  469999999999999999999999999999999999986


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus       113 ~~~~  116 (144)
T PLN03134        113 DRPS  116 (144)
T ss_pred             cCCC
Confidence            5443

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=99.32  E-value=2.4e-12  Score=133.58  Aligned_cols=164  Identities=19%  Similarity=0.298  Sum_probs=125.1

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      .+||||+||+.+.+.+|..||..||.+..+            .+  -.||+||+|.++.+|.-|+. |||..|.|..+.|
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~------------~m--k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vv   67 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDA------------DM--KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVV   67 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccc------------ee--ecccceeccCchhhhhcccchhcCceecceeeee
Confidence            479999999999999999999999963331            11  25889999999999999999 9999999988877


Q ss_pred             eCCCcccccccccccccccccCCcC--CcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEe
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVS--GIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIE  620 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVe  620 (967)
                      .++....... +.+... .-.+...  .......+.|+|.+++..+.+.+|.+.|.++|.+....+      ..+++||+
T Consensus        68 e~~r~~~~~~-g~~~~g-~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~------~~~~~~v~  139 (216)
T KOG0106|consen   68 EHARGKRRGR-GRPRGG-DRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA------RRNFAFVE  139 (216)
T ss_pred             eccccccccc-CCCCCC-CccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh------hcccccee
Confidence            7655321111 000000 0000000  111234578999999999999999999999999954433      47899999


Q ss_pred             ecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      |...++|..|+..|+|..+.|+.|++...
T Consensus       140 Fs~~~da~ra~~~l~~~~~~~~~l~~~~~  168 (216)
T KOG0106|consen  140 FSEQEDAKRALEKLDGKKLNGRRISVEKN  168 (216)
T ss_pred             ehhhhhhhhcchhccchhhcCceeeeccc
Confidence            99999999999999999999999999444

>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]

Probab=99.31  E-value=4.6e-11  Score=122.98  Aligned_cols=169  Identities=16%  Similarity=0.218  Sum_probs=123.6

Q ss_pred             CceEEEcCCCcccCHHHHHH----HHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGISRTLSSKMVME----IVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e----~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ..+|||.||+..+.-++|+.    +|+.||.|.+|...+. ...+|-|||.|.+++.|..|+..|+|+.|.|+++.|+||
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt-~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA   87 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT-PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYA   87 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC-CCccCceEEEecChhHHHHHHHHhcCCcccCchhheecc
Confidence            34999999999999998877    9999999999876543 346999999999999999999999999999999999998


Q ss_pred             ccCCCcCCC------------------------CCCC-----CCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHH
Q 002093          650 VLDGSIMDN------------------------SGNP-----PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELE  700 (967)
Q Consensus       650 ~~~~~~~~~------------------------~~~~-----~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~  700 (967)
                      .........                        ..+.     +..+++.........|..+|++.|+....+        
T Consensus        88 ~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~--------  159 (221)
T KOG4206|consen   88 KSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESE--------  159 (221)
T ss_pred             cCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchh--------
Confidence            543221110                        0000     001111111111245788899998865322        


Q ss_pred             HHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCC
Q 002093          701 VEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNE  759 (967)
Q Consensus       701 ~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~  759 (967)
                       .+.   +..+|+.|...+.|.++..    ..+.+||+|.+.-.|..|.+.|.|..+.-
T Consensus       160 -~e~---l~~lf~qf~g~keir~i~~----~~~iAfve~~~d~~a~~a~~~lq~~~it~  210 (221)
T KOG4206|consen  160 -SEM---LSDLFEQFPGFKEIRLIPP----RSGIAFVEFLSDRQASAAQQALQGFKITK  210 (221)
T ss_pred             -HHH---HHHHHhhCcccceeEeccC----CCceeEEecchhhhhHHHhhhhccceecc
Confidence             133   3445777777777777753    35779999999999999999999998873

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=99.30  E-value=2.2e-11  Score=123.70  Aligned_cols=169  Identities=20%  Similarity=0.324  Sum_probs=114.6

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeec----CCCcEEEEEEcCHHHHHHHHH-ccCce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ----REKGQAFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~----~skG~aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      ...-+||||.+||.++...+|..+|..|-   |.   ++.   .-..+.    ..+-+|||.|.+.+.|..|+. |||+.
T Consensus        31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~---GY---Egs---lLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvr  101 (284)
T KOG1457|consen   31 PGAVRTLFVSGLPNDVKPREIYNLFRRFH---GY---EGS---LLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVR  101 (284)
T ss_pred             ccccceeeeccCCcccCHHHHHHHhccCC---Cc---cce---eeeeccCCCccccceEEEEecchHHHHHHHHHhcCee
Confidence            34568999999999999999999998873   22   111   111222    235799999999999999999 99999


Q ss_pred             ee---cceeEEeCCCccccc-------ccccc-----------cc---------------ccccc---------CCcC--
Q 002093          535 FS---GSILKIKRPKEFVEV-------ASGEA-----------EK---------------SVASV---------DSVS--  567 (967)
Q Consensus       535 l~---Gr~l~V~rp~~~~~~-------~~~~~-----------~~---------------~~~~~---------~~~~--  567 (967)
                      |.   +..|+|..++.....       .++..           ..               ..+.+         ....  
T Consensus       102 FDpE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~  181 (284)
T KOG1457|consen  102 FDPETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSE  181 (284)
T ss_pred             eccccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchh
Confidence            94   667776543221110       00000           00               00000         0000  


Q ss_pred             ----------------------CcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcc
Q 002093          568 ----------------------GIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQL  625 (967)
Q Consensus       568 ----------------------~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e  625 (967)
                                            ......-.+|||.||..++|+++|+.+|+.|-....++|...  .+..+|||+|.+++
T Consensus       182 ~l~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g~~vaf~~~~~~~  259 (284)
T KOG1457|consen  182 ALSAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GGMPVAFADFEEIE  259 (284)
T ss_pred             hhhhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CCcceEeecHHHHH
Confidence                                  000011247999999999999999999999988766665321  24669999999999


Q ss_pred             hHHHHHHHhCCCcc
Q 002093          626 VTPKAIAGLNGLKV  639 (967)
Q Consensus       626 ~A~~Al~~LnG~~~  639 (967)
                      .|..|+..|+|..|
T Consensus       260 ~at~am~~lqg~~~  273 (284)
T KOG1457|consen  260 QATDAMNHLQGNLL  273 (284)
T ss_pred             HHHHHHHHhhccee
Confidence            99999999998765

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.27  E-value=1.2e-11  Score=123.03  Aligned_cols=80  Identities=19%  Similarity=0.286  Sum_probs=69.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|.+||.+..+      .++.+..++.++|||||+|.+.++|..||. ||+..|.|+.
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v------~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~  105 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDA------KVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRH  105 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEE------EEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            345689999999999999999999999964433      234666788999999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+..
T Consensus       106 l~V~~a~  112 (144)
T PLN03134        106 IRVNPAN  112 (144)
T ss_pred             EEEEeCC
Confidence            9998654

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.25  E-value=1.4e-09  Score=117.79  Aligned_cols=275  Identities=19%  Similarity=0.208  Sum_probs=177.3

Q ss_pred             CCCCCEEEEeCCC--CcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          460 NRPMRRLCVENLP--LSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp--~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      ..+++-|.+.=|.  +.+|-+-|..+.++.|+            |..+.+ .+..-.|.|||.+.+.|++|.+ |||..|
T Consensus       117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~Gk------------VlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADI  184 (494)
T KOG1456|consen  117 ATPNKVLLFTILNPQYPITVDVLYTICNPQGK------------VLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADI  184 (494)
T ss_pred             CCCCeEEEEEeecCccccchhhhhhhcCCCCc------------eEEEEEEeccceeeEEeechhHHHHHHHhhcccccc
Confidence            4455666665554  57899999999999884            333333 2333469999999999999999 999776


Q ss_pred             e-c-ceeEEeCCC--------------ccccccc-cc-------------------cccccc--c----c----------
Q 002093          536 S-G-SILKIKRPK--------------EFVEVAS-GE-------------------AEKSVA--S----V----------  563 (967)
Q Consensus       536 ~-G-r~l~V~rp~--------------~~~~~~~-~~-------------------~~~~~~--~----~----------  563 (967)
                      . | .+|+|..++              +|..+.. +.                   ...+..  .    .          
T Consensus       185 YsGCCTLKIeyAkP~rlnV~knd~DtwDyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~  264 (494)
T KOG1456|consen  185 YSGCCTLKIEYAKPTRLNVQKNDKDTWDYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPP  264 (494)
T ss_pred             cccceeEEEEecCcceeeeeecCCccccccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCC
Confidence            3 3 566665432              1211100 00                   000000  0    0          


Q ss_pred             ------------CCcCCcccCCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHH
Q 002093          564 ------------DSVSGIVKDSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA  630 (967)
Q Consensus       564 ------------~~~~~~~~~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~A  630 (967)
                                  +..+.........+.|.+|.. .++.+.|..+|..||.|..|.+++.   ..|.|.|++.+....++|
T Consensus       265 P~r~~~~~~~~~g~a~p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkT---k~gtamVemgd~~aver~  341 (494)
T KOG1456|consen  265 PSRYRDGYRDGRGYASPGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKT---KPGTAMVEMGDAYAVERA  341 (494)
T ss_pred             CCCCccccccCCCCCCCCCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeec---ccceeEEEcCcHHHHHHH
Confidence                        000001112346788999984 5778899999999999999999876   578999999999999999


Q ss_pred             HHHhCCCccCCeEEEEEEcccCCCcCC-----CCC-----------CCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCC
Q 002093          631 IAGLNGLKVGGQVLTAVQAVLDGSIMD-----NSG-----------NPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFS  694 (967)
Q Consensus       631 l~~LnG~~~~Gr~I~V~~a~~~~~~~~-----~~~-----------~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~  694 (967)
                      +..||+..+-|.+|.|..+..+.....     ..+           +..|..-...++.....|++||...|..-  .  
T Consensus       342 v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~--~--  417 (494)
T KOG1456|consen  342 VTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPL--G--  417 (494)
T ss_pred             HHHhccCccccceEEEeeccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCC--c--
Confidence            999999999999999988755432211     001           11111111122344567899999888743  2  


Q ss_pred             CCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc
Q 002093          695 SLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKG  761 (967)
Q Consensus       695 ~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~  761 (967)
                       ++++.+..|+.+...      .-.+|+|..-.... ...|.++|++.++|..||..||-..+.+..
T Consensus       418 -vtEe~l~~i~nek~v------~~~svkvFp~kser-SssGllEfe~~s~Aveal~~~NH~pi~~p~  476 (494)
T KOG1456|consen  418 -VTEEQLIGICNEKDV------PPTSVKVFPLKSER-SSSGLLEFENKSDAVEALMKLNHYPIEGPN  476 (494)
T ss_pred             -cCHHHHHHHhhhcCC------CcceEEeecccccc-cccceeeeehHHHHHHHHHHhccccccCCC
Confidence             466655555433211      13455555332222 235789999999999999999998887654

>PF00076 RRM_1: RNA recognition motif

Probab=99.21  E-value=2.9e-11  Score=103.92  Aligned_cols=69  Identities=20%  Similarity=0.467  Sum_probs=64.7

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      |||+|||..+++++|+++|++||.|..+.+..+ .+..+|+|||+|.+.++|.+|++.|+|..++|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            799999999999999999999999999999885 445699999999999999999999999999999985

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]

Probab=99.21  E-value=5.4e-10  Score=110.74  Aligned_cols=172  Identities=16%  Similarity=0.204  Sum_probs=122.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..+.|||+|||..+.+.+|.++|.+||.|..|.|... ....+||||+|.++-+|..||..-+|..++|..|.|.++--.
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r-~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg   83 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR-PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG   83 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC-CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCC
Confidence            3578999999999999999999999999999987432 223789999999999999999999999999999999998544


Q ss_pred             CCcCCCCCCCCC---CC-CCCC-CCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC
Q 002093          653 GSIMDNSGNPPF---HG-IPKH-ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG  727 (967)
Q Consensus       653 ~~~~~~~~~~~~---~~-i~~~-~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~  727 (967)
                      .....-.++-.-   .+ -... -.+.+......+++..|+....     +       +||+....+-|.|-...+.++ 
T Consensus        84 r~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgS-----W-------QDLKDHmReaGdvCfadv~rD-  150 (241)
T KOG0105|consen   84 RSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGS-----W-------QDLKDHMREAGDVCFADVQRD-  150 (241)
T ss_pred             CcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCc-----h-------HHHHHHHHhhCCeeeeeeecc-
Confidence            321110000000   00 0000 0011111223455556554322     2       467777777899999999886 


Q ss_pred             CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcce
Q 002093          728 DSNISTIQACEGNENTASAGVGQNLTNDETNEKGER  763 (967)
Q Consensus       728 ~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~  763 (967)
                           |++.|+|-..++-+=|+..|....|-...+.
T Consensus       151 -----g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~  181 (241)
T KOG0105|consen  151 -----GVGVVEYLRKEDMKYAVRKLDDQKFRSEGET  181 (241)
T ss_pred             -----cceeeeeeehhhHHHHHHhhccccccCcCcE
Confidence                 3677999999999999999988877665554

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=99.20  E-value=5.3e-11  Score=131.13  Aligned_cols=168  Identities=15%  Similarity=0.149  Sum_probs=132.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||++|+..++++.|++.|.+||.|..+.+.+|..  .++||+||+|.+++.+..+|. ..-+.|.|+.|.+..|.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av   83 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV   83 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence            467999999999999999999999999999999999854  469999999999999999886 44578999999999987


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DS  729 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g  729 (967)
                      +........               ....++.+++..+.....            ++++++.|++||.|..+.|+.+. ..
T Consensus        84 ~r~~~~~~~---------------~~~~tkkiFvGG~~~~~~------------e~~~r~yfe~~g~v~~~~~~~d~~~~  136 (311)
T KOG4205|consen   84 SREDQTKVG---------------RHLRTKKIFVGGLPPDTT------------EEDFKDYFEQFGKVADVVIMYDKTTS  136 (311)
T ss_pred             Ccccccccc---------------cccceeEEEecCcCCCCc------------hHHHhhhhhccceeEeeEEeeccccc
Confidence            755432111               011466777776543211            26799999999999999998874 67


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ..+||+||+|.+.+.+.+++. .....|+++++.|..++-
T Consensus       137 ~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~p  175 (311)
T KOG4205|consen  137 RPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIP  175 (311)
T ss_pred             ccccceeeEeccccccceecc-cceeeecCceeeEeeccc
Confidence            889999999999998877654 456777777777655543

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=99.20  E-value=2.5e-11  Score=126.06  Aligned_cols=162  Identities=15%  Similarity=0.181  Sum_probs=120.1

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ..+||++||..+.+.+|..||..||.|.+|.+      ..||+||+|.+.-+|.-|+..|||..|+|-.+.|.++....-
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~m------k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~   75 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADM------KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR   75 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhcccccccee------ecccceeccCchhhhhcccchhcCceecceeeeeeccccccc
Confidence            36899999999999999999999999998877      368999999999999999999999999999888888865322


Q ss_pred             cCCCCCCCCCCCC-C-CCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcc
Q 002093          655 IMDNSGNPPFHGI-P-KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS  732 (967)
Q Consensus       655 ~~~~~~~~~~~~i-~-~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~  732 (967)
                      ..   +......- + ............++.+.|+-.            ..-..||...|.+||.+..+.+       ..
T Consensus        76 ~~---g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~------------r~~~qdl~d~~~~~g~~~~~~~-------~~  133 (216)
T KOG0106|consen   76 GR---GRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSL------------RVSWQDLKDHFRPAGEVTYVDA-------RR  133 (216)
T ss_pred             cc---CCCCCCCccchhhccCCcccccceeeeccchh------------hhhHHHHhhhhcccCCCchhhh-------hc
Confidence            11   00000000 0 000000112234555555422            1223578999999999955544       45


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCccee
Q 002093          733 TIQACEGNENTASAGVGQNLTNDETNEKGERL  764 (967)
Q Consensus       733 G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v  764 (967)
                      +++||+|.+.++|..|+..|+|.+++++.+.+
T Consensus       134 ~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen  134 NFAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             cccceeehhhhhhhhcchhccchhhcCceeee
Confidence            78899999999999999999999999999887

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

Probab=99.19  E-value=4.3e-11  Score=127.91  Aligned_cols=82  Identities=20%  Similarity=0.291  Sum_probs=77.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+.+++|+|+|||+...+-||+.+|.+||.|.+|.|+-+...+|||+||.|.++++|.+|.+.|||..+.||+|.|..|.
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT  172 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT  172 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence            45689999999999999999999999999999999999887899999999999999999999999999999999999986


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      +.
T Consensus       173 ar  174 (376)
T KOG0125|consen  173 AR  174 (376)
T ss_pred             hh
Confidence            64

>PF00076 RRM_1: RNA recognition motif

Probab=99.14  E-value=6.3e-11  Score=101.79  Aligned_cols=69  Identities=33%  Similarity=0.497  Sum_probs=58.8

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      |||+|||+.+|+++|+++|++||.+..+       .+.....+..+|||||+|.+.++|..|++ |||..+.|++|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~-------~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESI-------KVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEE-------EEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccc-------cccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            7999999999999999999999964332       11122557789999999999999999999 999999999885

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

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

Probab=99.12  E-value=3.4e-10  Score=121.63  Aligned_cols=140  Identities=18%  Similarity=0.289  Sum_probs=102.2

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||..+|+++|.++|..||.+..+.      .+.+..++.++|||||+|.+.++|..|+. ++|..|.|+.|.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~------~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~  188 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVR------LVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLR  188 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEE------eeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeE
Confidence            68999999999999999999999999754432      22455789999999999999999999999 999999999999


Q ss_pred             EeCCCc-ccccccccc--ccc-ccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEee
Q 002093          542 IKRPKE-FVEVASGEA--EKS-VASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV  608 (967)
Q Consensus       542 V~rp~~-~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~  608 (967)
                      |..... .........  ... .................+++.+++..++...+...|..+|.+..+.+..
T Consensus       189 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (306)
T COG0724         189 VQKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPP  259 (306)
T ss_pred             eeccccccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhccccccceeeeccC
Confidence            996432 110000000  000 0000111112233457899999999999999999999999996655533

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.07  E-value=4.7e-10  Score=119.63  Aligned_cols=77  Identities=14%  Similarity=0.206  Sum_probs=71.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .++|||+|||+.+++++|+++|+.||.|.+|.|+.+.. .+|||||+|.+.++|..||. |||..|.|+.|.|.++...
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~-~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE-RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC-CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence            57899999999999999999999999999999988854 47999999999999999995 9999999999999998543

>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]

Probab=99.07  E-value=2.3e-10  Score=107.32  Aligned_cols=85  Identities=21%  Similarity=0.280  Sum_probs=69.4

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      +.+.++|||||||.+.+||++|.+||+.+|.+..|.      .=++..+...=|||||+|.+.++|..||. ++|..|..
T Consensus        32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irrii------MGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLdd  105 (153)
T KOG0121|consen   32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRII------MGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDD  105 (153)
T ss_pred             HHhhcceEEEeeeeeeecHHHHHHHHHhccchheeE------eccccCCcCccceEEEEEecchhHHHHHHHhccCcccc
Confidence            346789999999999999999999999999643320      11344455566999999999999999999 99999999


Q ss_pred             ceeEEeCCCccc
Q 002093          538 SILKIKRPKEFV  549 (967)
Q Consensus       538 r~l~V~rp~~~~  549 (967)
                      ++|+|.+...|.
T Consensus       106 r~ir~D~D~GF~  117 (153)
T KOG0121|consen  106 RPIRIDWDAGFV  117 (153)
T ss_pred             cceeeeccccch
Confidence            999998654444

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.05  E-value=4.9e-10  Score=119.47  Aligned_cols=80  Identities=21%  Similarity=0.262  Sum_probs=66.6

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .++|||+|||+.+|+++|++||+.||.+..+..+      .+   +..+|||||+|.++++|..||.|||..|.|+.|.|
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~------~d---~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~V   74 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQ------SE---NERSQIAYVTFKDPQGAETALLLSGATIVDQSVTI   74 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEe------ec---CCCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEE
Confidence            4699999999999999999999999964332111      11   23579999999999999999999999999999999


Q ss_pred             eCCCccccc
Q 002093          543 KRPKEFVEV  551 (967)
Q Consensus       543 ~rp~~~~~~  551 (967)
                      .+..+|..+
T Consensus        75 t~a~~~~~p   83 (260)
T PLN03120         75 TPAEDYQLP   83 (260)
T ss_pred             EeccCCCCC
Confidence            987777543

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

Probab=99.05  E-value=2.1e-09  Score=115.52  Aligned_cols=166  Identities=17%  Similarity=0.227  Sum_probs=111.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+++++|.++|..||.|..|.+..+.  +.++|||||+|.+.++|..|+..|+|..|.|+.|.|.++.+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~  194 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP  194 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence            6899999999999999999999999999999998885  56799999999999999999999999999999999999753


Q ss_pred             -CCCcCCCCC--CCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC
Q 002093          652 -DGSIMDNSG--NPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD  728 (967)
Q Consensus       652 -~~~~~~~~~--~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~  728 (967)
                       .........  ...+..-..............+.+.|+.....            ..++...|..+|.+..+.+.....
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  262 (306)
T COG0724         195 ASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTA------------EEELADLFKSRGDIVRASLPPSKD  262 (306)
T ss_pred             ccccccccccccchhhhccccccccccccccceeeccccccccc------------hhHHHHhccccccceeeeccCCCC
Confidence             111100000  00000000001111223445556665544322            246788899999997777765543


Q ss_pred             CC-cceeEEEEeCCHHHHHHHHHH
Q 002093          729 SN-ISTIQACEGNENTASAGVGQN  751 (967)
Q Consensus       729 g~-~~G~gFVeF~~~e~A~~Ai~~  751 (967)
                      +. ...+.++.+.....+..+...
T Consensus       263 ~~~~~~~~~~~~~~~~~~~~~~~~  286 (306)
T COG0724         263 GKIPKSRSFVGNEASKDALESNSR  286 (306)
T ss_pred             CcccccccccchhHHHhhhhhhcc
Confidence            32 333344555555545444443

>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]

Probab=99.05  E-value=4.8e-10  Score=110.69  Aligned_cols=75  Identities=19%  Similarity=0.358  Sum_probs=70.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+||+..+++.+|..+|.+||+|..|.|...   ..|||||||.++-+|..|+..|+|..|.|..|.|..+.-
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn---PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G   84 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN---PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG   84 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec---CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence            679999999999999999999999999999998775   589999999999999999999999999999999988744

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=99.04  E-value=1.2e-09  Score=127.74  Aligned_cols=73  Identities=22%  Similarity=0.335  Sum_probs=65.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      -++|||||.|+..++|.+|.++|+.||.            |..+.....+|+|||.+..-++|.+||. |+...+.++.|
T Consensus       420 ~SrTLwvG~i~k~v~e~dL~~~feefGe------------iqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~I  487 (894)
T KOG0132|consen  420 CSRTLWVGGIPKNVTEQDLANLFEEFGE------------IQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTI  487 (894)
T ss_pred             eeeeeeeccccchhhHHHHHHHHHhccc------------ceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceee
Confidence            3579999999999999999999999994            3455566789999999999999999999 99999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      +|.|+-
T Consensus       488 ki~Wa~  493 (894)
T KOG0132|consen  488 KIAWAV  493 (894)
T ss_pred             EEeeec
Confidence            998754

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=99.03  E-value=1.8e-09  Score=117.20  Aligned_cols=280  Identities=14%  Similarity=0.191  Sum_probs=180.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ....-|-.++||...+..+|..||.-      ++...+...+....-++..|.|.|.|.+++.-+.|+..+...+.++.|
T Consensus        58 ~~~vvvRaRglpwq~Sd~~ia~ff~g------l~ia~gg~aKOG~~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryi  131 (508)
T KOG1365|consen   58 DDNVVVRARGLPWQSSDQDIARFFKG------LNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYI  131 (508)
T ss_pred             CcceEEEecCCCCCcccCCHHHHHhh------hhccccceeeeehhhhccccceEEEecCchhhhhhhHhhhhhccCCce
Confidence            33445667899999999999999954      334444333344445777889999999999999999988888899999


Q ss_pred             EEeCCCccc--ccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhc----CCeeEEEEeec-CCCC
Q 002093          541 KIKRPKEFV--EVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAF----GPLKAYHFEVN-EDHE  613 (967)
Q Consensus       541 ~V~rp~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~----G~V~~v~l~~d-~~~s  613 (967)
                      .|-.+..-.  ....+...   ...   ........-.|-+.+||+.+++.++.+||...    |....|.++.- .+.-
T Consensus       132 evYka~ge~f~~iagg~s~---e~~---~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrp  205 (508)
T KOG1365|consen  132 EVYKATGEEFLKIAGGTSN---EAA---PFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRP  205 (508)
T ss_pred             eeeccCchhheEecCCccc---cCC---CCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCc
Confidence            987543211  11000000   000   00001123346678999999999999999743    23445656555 4556


Q ss_pred             CCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC--------CC---cCCCCCCCCCCCCCCCCCCCCCCCCeEE
Q 002093          614 EPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD--------GS---IMDNSGNPPFHGIPKHALPLLKKPTEVL  682 (967)
Q Consensus       614 kG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~--------~~---~~~~~~~~~~~~i~~~~~~~~~~ps~vl  682 (967)
                      .|-|||.|...++|+.||. -|-..++-|-|.+-++...        ..   .....+...++++|..-.+ ...+..||
T Consensus       206 TGdAFvlfa~ee~aq~aL~-khrq~iGqRYIElFRSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p-~~~~kdcv  283 (508)
T KOG1365|consen  206 TGDAFVLFACEEDAQFALR-KHRQNIGQRYIELFRSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVP-PTRSKDCV  283 (508)
T ss_pred             ccceEEEecCHHHHHHHHH-HHHHHHhHHHHHHHHHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCC-CCCCCCee
Confidence            8999999999999999996 4555666665654333111        00   0000111112222211111 11235577


Q ss_pred             EccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCC-eEE--EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCC
Q 002093          683 KLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS-VKS--VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNE  759 (967)
Q Consensus       683 ~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~-V~~--V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~  759 (967)
                      .|..+.            |+...|||-..|.-|-. |..  |.++-+..|.-.|-+||+|.+.++|..|.+.-+...-..
T Consensus       284 RLRGLP------------y~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~  351 (508)
T KOG1365|consen  284 RLRGLP------------YEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKS  351 (508)
T ss_pred             EecCCC------------hhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhccc
Confidence            776654            34556777777766653 444  778888899999999999999999999998887776667


Q ss_pred             CcceeEE
Q 002093          760 KGERLEE  766 (967)
Q Consensus       760 r~~~v~~  766 (967)
                      +.+.|-+
T Consensus       352 RYiEvfp  358 (508)
T KOG1365|consen  352 RYIEVFP  358 (508)
T ss_pred             ceEEEee
Confidence            7776655

>PLN03213 repressor of silencing 3; Provisional

Probab=99.03  E-value=5.9e-10  Score=124.00  Aligned_cols=76  Identities=18%  Similarity=0.322  Sum_probs=70.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCc--chHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ--LVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~--e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+||||||++.+++++|...|..||.|..|.|++.++  +|||||+|.+.  .++.+||..|||..+.|+.|+|..|.|
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            57899999999999999999999999999999996654  99999999988  678999999999999999999998744

>smart00362 RRM_2 RNA recognition motif

Probab=99.01  E-value=1.3e-09  Score=92.71  Aligned_cols=71  Identities=27%  Similarity=0.554  Sum_probs=66.2

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEE
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  646 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V  646 (967)
                      +|||+|||..+++++|+++|..||.|..+.+..+.+.++|+|||+|.+.++|..|+..|+|..|.|+.|.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            48999999999999999999999999999988776556899999999999999999999999999999987

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.01  E-value=6.5e-10  Score=96.18  Aligned_cols=69  Identities=22%  Similarity=0.456  Sum_probs=62.0

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      |||+|||..+++++|+++|+.||.|..+.+..++. ..+|+|||+|.+.++|..|++.++|..|+|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            79999999999999999999999999999988753 3589999999999999999999999999999884

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=99.00  E-value=1.2e-09  Score=99.05  Aligned_cols=82  Identities=16%  Similarity=0.314  Sum_probs=73.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +....-|||.|||..+|.+++.++|.+||.|..|+|-..++ .+|.|||.|.++.+|.+|+..|+|+.+.++.|.|-+..
T Consensus        15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~-TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq   93 (124)
T KOG0114|consen   15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE-TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ   93 (124)
T ss_pred             hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC-cCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence            34467899999999999999999999999999999854433 49999999999999999999999999999999998876


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        94 ~~~   96 (124)
T KOG0114|consen   94 PED   96 (124)
T ss_pred             HHH
Confidence            643

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=1.2e-09  Score=113.01  Aligned_cols=80  Identities=18%  Similarity=0.297  Sum_probs=74.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|-|.||+.++++++|+++|.+||.|..|+|.+|+.+  ++|||||.|.+.++|.+||+.|||+-+..-.|.|.|+.
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk  267 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK  267 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence            4578999999999999999999999999999999999654  69999999999999999999999999999999999997


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      |.
T Consensus       268 P~  269 (270)
T KOG0122|consen  268 PS  269 (270)
T ss_pred             CC
Confidence            74

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

Probab=98.99  E-value=1.4e-09  Score=116.59  Aligned_cols=81  Identities=22%  Similarity=0.322  Sum_probs=67.8

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .....++|+|.|||+..-+.||+.+|.+||.+..|+.|        ..-..|||||||+|.++++|++|-+ |+|..+.|
T Consensus        92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEII--------fNERGSKGFGFVTmen~~dadRARa~LHgt~VEG  163 (376)
T KOG0125|consen   92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEII--------FNERGSKGFGFVTMENPADADRARAELHGTVVEG  163 (376)
T ss_pred             CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEE--------eccCCCCccceEEecChhhHHHHHHHhhcceeec
Confidence            34567899999999999999999999999964443211        1224589999999999999999999 99999999


Q ss_pred             ceeEEeCCCc
Q 002093          538 SILKIKRPKE  547 (967)
Q Consensus       538 r~l~V~rp~~  547 (967)
                      ++|.|.+++.
T Consensus       164 RkIEVn~ATa  173 (376)
T KOG0125|consen  164 RKIEVNNATA  173 (376)
T ss_pred             eEEEEeccch
Confidence            9999996543

>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]

Probab=98.98  E-value=1e-09  Score=103.04  Aligned_cols=77  Identities=12%  Similarity=0.263  Sum_probs=70.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ..++|||+||+..++|++|.++|++.|.|..|.+-.|+  .+..|||||+|.+.++|..|+.-++|..+..++|.|-+.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D  113 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD  113 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence            46899999999999999999999999999998776664  356899999999999999999999999999999999775

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.97  E-value=3.5e-11  Score=118.96  Aligned_cols=89  Identities=12%  Similarity=0.207  Sum_probs=78.8

Q ss_pred             ccCCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       457 ~~~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      .+.-..+.-|||||||+.+||.||..+|++||.+..|+      +|.+..||.++||||+.|.+.-++-.|+. |||+.|
T Consensus        29 H~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdin------LiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki  102 (219)
T KOG0126|consen   29 HQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDIN------LIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKI  102 (219)
T ss_pred             hhhcccceEEEECCCcccccCCcEEEEeeccCceEEEE------EEecCCCCcccceEEEEecCccceEEEEeccCCcee
Confidence            44456777999999999999999999999999866653      55889999999999999999999999999 999999


Q ss_pred             ecceeEEeCCCccccc
Q 002093          536 SGSILKIKRPKEFVEV  551 (967)
Q Consensus       536 ~Gr~l~V~rp~~~~~~  551 (967)
                      .|+.|+|.....|..+
T Consensus       103 ~gRtirVDHv~~Yk~p  118 (219)
T KOG0126|consen  103 LGRTIRVDHVSNYKKP  118 (219)
T ss_pred             cceeEEeeecccccCC
Confidence            9999999877766654

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.96  E-value=6.3e-10  Score=96.25  Aligned_cols=69  Identities=33%  Similarity=0.452  Sum_probs=54.5

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      |||+|||+++|+++|+++|+.||.+..+.      .+.+.. +..+|+|||+|.++++|..|+. ++|..|.|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~------~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVR------LIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEE------EEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEE------EEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            79999999999999999999998532221      112222 6678999999999999999999 777999999874

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.95  E-value=2.3e-09  Score=112.59  Aligned_cols=75  Identities=13%  Similarity=0.128  Sum_probs=69.3

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..+|||+||++.+|+++|++||+.||.|.+|.|+++. ...|||||+|.+++++..|+ .|+|..|.++.|.|....
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~-et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG-EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG   79 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC-CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence            5789999999999999999999999999999999884 34689999999999999999 599999999999998764

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.95  E-value=2.5e-09  Score=112.36  Aligned_cols=80  Identities=20%  Similarity=0.188  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      ..+|||+||++.+|+++|++||+.||.+..+..+      .+   +..++||||+|.++++|..||.|||..|.|++|.|
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~------~D---~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~I   75 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEII------RS---GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCI   75 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEe------cC---CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEE
Confidence            4699999999999999999999999964443211      12   45678999999999999999999999999999999


Q ss_pred             eCCCccccc
Q 002093          543 KRPKEFVEV  551 (967)
Q Consensus       543 ~rp~~~~~~  551 (967)
                      .+..+|..+
T Consensus        76 t~~~~y~~~   84 (243)
T PLN03121         76 TRWGQYEDE   84 (243)
T ss_pred             EeCcccccC
Confidence            987777654

>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]

Probab=98.93  E-value=1.4e-09  Score=107.54  Aligned_cols=70  Identities=26%  Similarity=0.348  Sum_probs=61.8

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      .++||||||+..+++.+|..+|..||.            |..+++ -...|||||||.++-+|..|+. |||..|.|..|
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~------------lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~   77 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGP------------LRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRI   77 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCc------------ceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceE
Confidence            579999999999999999999999994            344443 2568999999999999999999 99999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +|..
T Consensus        78 rVE~   81 (195)
T KOG0107|consen   78 RVEL   81 (195)
T ss_pred             EEEe
Confidence            9973

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

Probab=98.91  E-value=2.2e-08  Score=112.83  Aligned_cols=170  Identities=9%  Similarity=0.055  Sum_probs=126.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .....|-+.+||+++|+++|.+||+.++ |..+.+.+..+...|-|||+|.+.+++.+||+ .+-..++.+-|.|-.+.+
T Consensus         8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~   85 (510)
T KOG4211|consen    8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGG   85 (510)
T ss_pred             CcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCC
Confidence            3456788899999999999999999876 55677777777789999999999999999997 787888999999977754


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEE-EEEecCCCCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKS-VNVVKYGDSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~-V~I~r~~~g~  730 (967)
                      ........      .    ..+.+..+.-||.|..|...            +..+||.+.|+..=.|.. |.++.+..+.
T Consensus        86 ~e~d~~~~------~----~g~~s~~~d~vVRLRGLPfs------------cte~dI~~FFaGL~Iv~~gi~l~~d~rgR  143 (510)
T KOG4211|consen   86 AEADWVMR------P----GGPNSSANDGVVRLRGLPFS------------CTEEDIVEFFAGLEIVPDGILLPMDQRGR  143 (510)
T ss_pred             cccccccc------C----CCCCCCCCCceEEecCCCcc------------CcHHHHHHHhcCCcccccceeeeccCCCC
Confidence            33211100      0    01112245678888888652            333688999987765555 5577888888


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEE
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  766 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~  766 (967)
                      ..|-+||+|.+.+.|++|++.- -..++-+.|.|-.
T Consensus       144 ~tGEAfVqF~sqe~ae~Al~rh-re~iGhRYIEvF~  178 (510)
T KOG4211|consen  144 PTGEAFVQFESQESAEIALGRH-RENIGHRYIEVFR  178 (510)
T ss_pred             cccceEEEecCHHHHHHHHHHH-HHhhccceEEeeh
Confidence            8999999999999999998754 3445555555533

>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]

Probab=98.91  E-value=1.9e-09  Score=108.77  Aligned_cols=79  Identities=13%  Similarity=0.211  Sum_probs=73.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....|.|-||.+.++.++|+.+|++||.|-+|.|.+|.-  .++|||||.|....+|+.|+++|+|..|+|+.|.|+.|.
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            457899999999999999999999999999999999964  469999999999999999999999999999999998884


Q ss_pred             c
Q 002093          651 L  651 (967)
Q Consensus       651 ~  651 (967)
                      -
T Consensus        92 y   92 (256)
T KOG4207|consen   92 Y   92 (256)
T ss_pred             c
Confidence            3

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.91  E-value=2.5e-10  Score=113.09  Aligned_cols=79  Identities=23%  Similarity=0.382  Sum_probs=72.9

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..-|||||||+.+|+.||...|++||.|..|.|++|+.  .++||||+.|.+.-++..|+..|||..|.|+.|+|-....
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~  114 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSN  114 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeeccc
Confidence            45699999999999999999999999999999999965  4699999999999999999999999999999999987644


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus       115 Y  115 (219)
T KOG0126|consen  115 Y  115 (219)
T ss_pred             c
Confidence            3

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.89  E-value=5.5e-09  Score=110.92  Aligned_cols=82  Identities=18%  Similarity=0.322  Sum_probs=75.4

Q ss_pred             CcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          568 GIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       568 ~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      .++.++-.+|||+-|+..++|..|+..|++||+|+.|.|+.|.  +.++|||||+|...-+...|.+..+|.+|+|+.|.
T Consensus        95 ~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~  174 (335)
T KOG0113|consen   95 NAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRIL  174 (335)
T ss_pred             cccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEE
Confidence            3445678999999999999999999999999999999999994  56799999999999999999999999999999999


Q ss_pred             EEEc
Q 002093          646 AVQA  649 (967)
Q Consensus       646 V~~a  649 (967)
                      |-+-
T Consensus       175 VDvE  178 (335)
T KOG0113|consen  175 VDVE  178 (335)
T ss_pred             EEec
Confidence            9765

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=98.87  E-value=4.7e-08  Score=99.91  Aligned_cols=172  Identities=12%  Similarity=0.201  Sum_probs=117.5

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec-CC--CCCCEEEEeecCcchHHHHHHHhCCCcc---CCeEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-ED--HEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLT  645 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d-~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~---~Gr~I~  645 (967)
                      ..-++|||.+||..+...+|..+|..|-..+.+.|... ++  ..+.+|||.|.+..+|..|++.|||..|   .+..|.
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh  111 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH  111 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence            34689999999999999999999999877766655332 21  2467999999999999999999999998   578898


Q ss_pred             EEEcccCCCcCCC-----CCC-CC---------------------------CC------CCCC-----------------
Q 002093          646 AVQAVLDGSIMDN-----SGN-PP---------------------------FH------GIPK-----------------  669 (967)
Q Consensus       646 V~~a~~~~~~~~~-----~~~-~~---------------------------~~------~i~~-----------------  669 (967)
                      +..|..+......     .+. .+                           ++      .++.                 
T Consensus       112 iElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P  191 (284)
T KOG1457|consen  112 IELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAP  191 (284)
T ss_pred             eeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCC
Confidence            8887554321100     000 00                           00      0000                 


Q ss_pred             -CCC--------CCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeC
Q 002093          670 -HAL--------PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGN  740 (967)
Q Consensus       670 -~~~--------~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~  740 (967)
                       ...        ..+.....+|+|.|+-..     ++       ++.|+++|..|--..-++|... .  ....+|++|.
T Consensus       192 ~a~a~l~ks~q~~~~~~acstlfianl~~~-----~~-------ed~l~~~~~~~~gf~~l~~~~~-~--g~~vaf~~~~  256 (284)
T KOG1457|consen  192 SANAHLEKSSQGGSGARACSTLFIANLGPN-----CT-------EDELKQLLSRYPGFHILKIRAR-G--GMPVAFADFE  256 (284)
T ss_pred             cccchhhhhhcccccchhhhhHhhhccCCC-----CC-------HHHHHHHHHhCCCceEEEEecC-C--CcceEeecHH
Confidence             000        001122346788887542     12       2568999999977666666432 2  2357999999


Q ss_pred             CHHHHHHHHHHhCCCccC
Q 002093          741 ENTASAGVGQNLTNDETN  758 (967)
Q Consensus       741 ~~e~A~~Ai~~LnG~~~~  758 (967)
                      +.+.|..||..|.|..|.
T Consensus       257 ~~~~at~am~~lqg~~~s  274 (284)
T KOG1457|consen  257 EIEQATDAMNHLQGNLLS  274 (284)
T ss_pred             HHHHHHHHHHHhhcceec
Confidence            999999999999998764

>smart00361 RRM_1 RNA recognition motif

Probab=98.86  E-value=6.8e-09  Score=90.31  Aligned_cols=62  Identities=11%  Similarity=0.028  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHhcCCCeEEEE-EecC-CC--CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCccee
Q 002093          703 EVLEDVRLECARFGSVKSVN-VVKY-GD--SNISTIQACEGNENTASAGVGQNLTNDETNEKGERL  764 (967)
Q Consensus       703 ei~eDIr~~f~kFG~V~~V~-I~r~-~~--g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v  764 (967)
                      +|.+.+.++|++||.|.+|. |+.+ .+  +..+|||||+|.+.++|.+|+..|||+.|.|+.+.+
T Consensus         4 ~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        4 DFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             hHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            44566777788999999995 5443 33  788999999999999999999999999999998764

>PLN03213 repressor of silencing 3; Provisional

Probab=98.85  E-value=3.4e-09  Score=118.01  Aligned_cols=75  Identities=19%  Similarity=0.366  Sum_probs=64.0

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCH--HHHHHHHH-ccCceeecc
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA--EDASAALC-CDGCSFSGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~--e~A~~Al~-lng~~l~Gr  538 (967)
                      ...+||||||++.+|+++|..+|..||.+..+..       + ..+|  +|||||+|.+.  .++.+||. |||..+.|+
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEI-------p-RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR   78 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEF-------V-RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG   78 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEE-------e-cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence            3468999999999999999999999997554322       2 3345  99999999988  78999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|..++
T Consensus        79 ~LKVNKAK   86 (759)
T PLN03213         79 RLRLEKAK   86 (759)
T ss_pred             eeEEeecc
Confidence            99998765

>smart00362 RRM_2 RNA recognition motif

Probab=98.83  E-value=1.2e-08  Score=86.72  Aligned_cols=71  Identities=34%  Similarity=0.471  Sum_probs=58.5

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      +|||+|||..+++++|+++|..||.+..+..       .... +.++|+|||+|.+.++|..|+. ++|..+.|+.|.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~-------~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKI-------PKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEE-------ecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            5899999999999999999999995333211       1111 5567999999999999999999 99999999998873

>smart00360 RRM RNA recognition motif

Probab=98.81  E-value=1.4e-08  Score=85.93  Aligned_cols=68  Identities=21%  Similarity=0.447  Sum_probs=62.5

Q ss_pred             EcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEE
Q 002093          579 IGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  646 (967)
Q Consensus       579 V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V  646 (967)
                      |+|||..+++++|+++|+.||.|..+.+..+.  +.++|+|||+|.+.++|..|+..|+|..++|+.|.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            57899999999999999999999999988764  346899999999999999999999999999999887

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

Probab=98.81  E-value=6.4e-09  Score=98.44  Aligned_cols=81  Identities=21%  Similarity=0.373  Sum_probs=73.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .-.|||.++....|+++|.+.|..||.|+.|.|..|..+  .+|||+|+|.+..+|++|+..|||..|.|+.|.|-|+..
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv  151 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV  151 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence            467999999999999999999999999999999888544  499999999999999999999999999999999999865


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      .++
T Consensus       152 ~gp  154 (170)
T KOG0130|consen  152 KGP  154 (170)
T ss_pred             cCC
Confidence            443

>PF13893 RRM_5: RNA recognition motif

Probab=98.80  E-value=1.3e-08  Score=84.30  Aligned_cols=56  Identities=14%  Similarity=0.144  Sum_probs=49.6

Q ss_pred             HHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          708 VRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       708 Ir~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      |..+|++||+|+.|.+.++.    .+++||+|.+.++|..|+..|||..|.|+.+.|..+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            46789999999999998865    588999999999999999999999999999888653

(a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....

>PF13893 RRM_5: RNA recognition motif

Probab=98.80  E-value=1.4e-08  Score=84.22  Aligned_cols=56  Identities=27%  Similarity=0.396  Sum_probs=50.8

Q ss_pred             HHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          591 VMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       591 L~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      |.++|++||.|..|.+....   .++|||+|.+.++|..|++.|||..|.|++|.|.+|
T Consensus         1 L~~~f~~fG~V~~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            67899999999999987652   699999999999999999999999999999999885

(a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....

>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

Probab=98.79  E-value=2.9e-08  Score=84.74  Aligned_cols=73  Identities=25%  Similarity=0.495  Sum_probs=66.6

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +|+|+|||..+++++|+++|..||.|..+.+..+.. ...|+|||+|.+.++|..|+..++|..+.|+.|.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            489999999999999999999999999999987643 3589999999999999999999999999999998863

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=98.77  E-value=1.1e-08  Score=106.15  Aligned_cols=78  Identities=26%  Similarity=0.314  Sum_probs=69.6

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ...+|-|.||+.+++|++|++||.+||.+..+      .+.++..||.++|||||.|.+.++|.+||. |||.-+..-.|
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rv------ylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LIL  261 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRV------YLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLIL  261 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCcccee------EEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEE
Confidence            56789999999999999999999999974443      245888999999999999999999999999 99999988889


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.+.
T Consensus       262 rvEws  266 (270)
T KOG0122|consen  262 RVEWS  266 (270)
T ss_pred             EEEec
Confidence            88853

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

Probab=98.77  E-value=9.6e-08  Score=105.53  Aligned_cols=73  Identities=12%  Similarity=0.215  Sum_probs=65.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|||.|||..+|++.|++-|..||.|..+.| ...+.++|  .|.|.++++|..|+..|+|..+.|+.|.|.|.
T Consensus       536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadi-me~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~  608 (608)
T KOG4212|consen  536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADI-MENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF  608 (608)
T ss_pred             ccEEEEecCCccccHHHHHHHHHhccceehhhh-hccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence            467999999999999999999999999998887 33344455  89999999999999999999999999999873

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=98.76  E-value=7.9e-09  Score=106.87  Aligned_cols=77  Identities=19%  Similarity=0.210  Sum_probs=65.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ....+||||||+..++.+.|+.+|++||++...      ..|.|..++++||||||+|.+.+.|+.|++-..-.|.|+..
T Consensus        10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~ea------vvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~a   83 (247)
T KOG0149|consen   10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEA------VVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKA   83 (247)
T ss_pred             ceEEEEEEcCcccccchHHHHHHHHHhCceEEE------EEEeccCCccccceeeEEeecHHHHHHHhcCCCCccccccc
Confidence            345689999999999999999999999975442      25678899999999999999999999999966667788776


Q ss_pred             EEe
Q 002093          541 KIK  543 (967)
Q Consensus       541 ~V~  543 (967)
                      .+.
T Consensus        84 Ncn   86 (247)
T KOG0149|consen   84 NCN   86 (247)
T ss_pred             ccc
Confidence            554

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=98.75  E-value=1.8e-08  Score=104.26  Aligned_cols=77  Identities=18%  Similarity=0.284  Sum_probs=69.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      -++||||||++.+..+.|+..|++||.|....|+.|+.  .++||+||.|.+.++|.+|++.-| -.|+||...|..|..
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence            46899999999999999999999999999999999965  579999999999999999998554 678999988888765

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.75  E-value=1.7e-08  Score=107.29  Aligned_cols=78  Identities=24%  Similarity=0.343  Sum_probs=71.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.+||||+-|+++++|..|+..|+.||.|..|.      +|.+..+|.++|||||+|.+.-+...|+. .+|++|.|+
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG~Ikrir------lV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgr  171 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIR------LVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGR  171 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcCcceeEE------EeeecccCCccceEEEEeccHHHHHHHHHhccCceecCc
Confidence            36789999999999999999999999999865553      45788999999999999999999999999 999999999


Q ss_pred             eeEEe
Q 002093          539 ILKIK  543 (967)
Q Consensus       539 ~l~V~  543 (967)
                      .|.|-
T Consensus       172 ri~VD  176 (335)
T KOG0113|consen  172 RILVD  176 (335)
T ss_pred             EEEEE
Confidence            99885

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

Probab=98.73  E-value=1.1e-08  Score=96.76  Aligned_cols=75  Identities=19%  Similarity=0.237  Sum_probs=67.9

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      -.|||.+++..+||++|.+.|..||++.+|.      +-++..+|-.+|||+|+|.+.++|..|+. |||..|.|++|.|
T Consensus        73 wIi~VtgvHeEatEedi~d~F~dyGeiKNih------LNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~V  146 (170)
T KOG0130|consen   73 WIIFVTGVHEEATEEDIHDKFADYGEIKNIH------LNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSV  146 (170)
T ss_pred             EEEEEeccCcchhHHHHHHHHhhccccccee------eccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeE
Confidence            3699999999999999999999999866542      22778899999999999999999999999 9999999999999


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      .|
T Consensus       147 Dw  148 (170)
T KOG0130|consen  147 DW  148 (170)
T ss_pred             EE
Confidence            85

>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]

Probab=98.71  E-value=2e-08  Score=101.48  Aligned_cols=78  Identities=27%  Similarity=0.337  Sum_probs=68.7

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ....|-|-||.+-+|.++|+.+|+.||.+..|.      +-.+..|..++|||||-|.+..+|+.||+ |+|.+|.|+.|
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVy------IPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRel   85 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVY------IPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGREL   85 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHhCccccee------cccccccccccceeEEEeeecchHHHHHHhhcceeecccee
Confidence            345899999999999999999999999755542      22677889999999999999999999999 99999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|+.+
T Consensus        86 rVq~a   90 (256)
T KOG4207|consen   86 RVQMA   90 (256)
T ss_pred             eehhh
Confidence            99843

>smart00361 RRM_1 RNA recognition motif

Probab=98.71  E-value=3.2e-08  Score=86.12  Aligned_cols=59  Identities=19%  Similarity=0.322  Sum_probs=51.4

Q ss_pred             HHHHHHHHH----hcCCeeEEE-EeecC----CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEE
Q 002093          588 SKMVMEIVC----AFGPLKAYH-FEVNE----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  646 (967)
Q Consensus       588 eedL~e~Fs----k~G~V~~v~-l~~d~----~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V  646 (967)
                      +++|+++|+    +||.|..|. |+.+.    +.++|||||+|.+.++|.+|+..|||.++.|+.|++
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            467777777    999999985 65554    456999999999999999999999999999999986

>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.69  E-value=1.9e-08  Score=102.24  Aligned_cols=83  Identities=16%  Similarity=0.338  Sum_probs=76.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++||||+|...+++.-|...|-+||.|.+|.++.|-.  ..+|||||+|.-.++|.+||..||+..|.|+.|+|.+|.
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak   88 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK   88 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence            468999999999999999999999999999999998843  469999999999999999999999999999999999998


Q ss_pred             cCCCc
Q 002093          651 LDGSI  655 (967)
Q Consensus       651 ~~~~~  655 (967)
                      |....
T Consensus        89 P~kik   93 (298)
T KOG0111|consen   89 PEKIK   93 (298)
T ss_pred             Ccccc
Confidence            86654

>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]

Probab=98.67  E-value=2.5e-08  Score=114.76  Aligned_cols=80  Identities=23%  Similarity=0.335  Sum_probs=72.4

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      +.|||||||+.+++++|..+|+..|.+..+.      .+.|..+|..+|||||+|.+.++|..|++ |||..+.|++|+|
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~------~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v   92 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFR------LVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRV   92 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceee------ecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEe
Confidence            7899999999999999999999998766553      44788999999999999999999999999 9999999999999


Q ss_pred             eCCCccc
Q 002093          543 KRPKEFV  549 (967)
Q Consensus       543 ~rp~~~~  549 (967)
                      .++....
T Consensus        93 ~~~~~~~   99 (435)
T KOG0108|consen   93 NYASNRK   99 (435)
T ss_pred             ecccccc
Confidence            9876544

>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]

Probab=98.67  E-value=3.7e-08  Score=113.34  Aligned_cols=79  Identities=23%  Similarity=0.424  Sum_probs=73.7

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..|||||||+.+++++|.++|+..|.|.+++++.|..  ..+||||++|.+.++|..|++.|||..|.|++|+|.|+...
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~   98 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR   98 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence            8899999999999999999999999999999998854  46999999999999999999999999999999999998544


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        99 ~   99 (435)
T KOG0108|consen   99 K   99 (435)
T ss_pred             c
Confidence            3

>smart00360 RRM RNA recognition motif

Probab=98.66  E-value=4.1e-08  Score=82.97  Aligned_cols=70  Identities=37%  Similarity=0.465  Sum_probs=57.0

Q ss_pred             EeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       468 VgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      |+|||..+++++|+++|+.||.+..+..      .....++.++|||||+|.+.++|..|+. +++..+.|+.|.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i------~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRL------VRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEE------EeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            6899999999999999999995433211      1222246778999999999999999999 99999999998873

>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.66  E-value=1.6e-08  Score=102.80  Aligned_cols=79  Identities=28%  Similarity=0.320  Sum_probs=69.6

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++||||+|...+||.-|...|-+||-+..|.      .-++-...+++|||||+|.-.|+|..||. ||+..|.|+
T Consensus         7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIq------iPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~Gr   80 (298)
T KOG0111|consen    7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQ------IPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGR   80 (298)
T ss_pred             cccceeEEeccchHHHHHHHHHhccccccchhhcc------cccchhcccccceeEEEeeccchhHHHhhcCchhhhcce
Confidence            34578999999999999999999999999644432      22677889999999999999999999999 999999999


Q ss_pred             eeEEeC
Q 002093          539 ILKIKR  544 (967)
Q Consensus       539 ~l~V~r  544 (967)
                      .|+|..
T Consensus        81 tirVN~   86 (298)
T KOG0111|consen   81 TIRVNL   86 (298)
T ss_pred             eEEEee
Confidence            999984

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.65  E-value=3.6e-09  Score=107.68  Aligned_cols=144  Identities=19%  Similarity=0.205  Sum_probs=113.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...+||||+||-..++|+-|.++|-+.|+++.+       .|-+...+..+ ||||.|.+.-....|++ +||..+.+.+
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv-------~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e   78 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKV-------GIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDE   78 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceEEE-------eCCCCccCCCc-eeeeecccccchhhhhhhcccchhccch
Confidence            456899999999999999999999888853332       12233334455 99999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcC----CCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCC
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGG----ISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEE  614 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~n----Lp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~sk  614 (967)
                      +.|..                                 +.|+    |...++++.+...|+..|++..+++..+.+ .++
T Consensus        79 ~q~~~---------------------------------r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnr  125 (267)
T KOG4454|consen   79 EQRTL---------------------------------RCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNR  125 (267)
T ss_pred             hhccc---------------------------------ccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCcc
Confidence            98862                                 1122    456678889999999999999999987743 468


Q ss_pred             CEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      .++|+.+.-......|+....|..+.-+++.
T Consensus       126 n~~~~~~qr~~~~P~~~~~y~~l~~~~~~~~  156 (267)
T KOG4454|consen  126 NFGFVTYQRLCAVPFALDLYQGLELFQKKVT  156 (267)
T ss_pred             CccchhhhhhhcCcHHhhhhcccCcCCCCcc
Confidence            8999999999999999987777665444433

>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

Probab=98.63  E-value=9e-08  Score=81.69  Aligned_cols=72  Identities=35%  Similarity=0.467  Sum_probs=58.6

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      +|||+|||+.+++++|.++|..||.+..+.       +.....+..+|+|||+|.+.++|..|+. +++..+.|+.|.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~-------~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVR-------IVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEE-------EeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            489999999999999999999998533321       1111122458999999999999999999 99999999999885

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.63  E-value=8.2e-08  Score=87.26  Aligned_cols=71  Identities=21%  Similarity=0.291  Sum_probs=61.9

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee---cCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~---~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      .+-|||.|||+.+|.+++.++|-.||.            |..+.+   ...+|.|||.|.+..+|.+|+. |+|+.+.++
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~------------IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~r   85 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGT------------IRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNR   85 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccc------------eEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCc
Confidence            567999999999999999999999994            333333   3457999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|.|..+
T Consensus        86 yl~vlyy   92 (124)
T KOG0114|consen   86 YLVVLYY   92 (124)
T ss_pred             eEEEEec
Confidence            9999854

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=98.59  E-value=6.5e-08  Score=105.41  Aligned_cols=184  Identities=16%  Similarity=0.196  Sum_probs=124.0

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      .|-+++||+++|+.|+.+||-+--.+.+  .+++ .+.+..-.|+..|-|||.|..+++|..||.-|...++-+-|.+-|
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~--g~eg-vLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFR  239 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTG--GTEG-VLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFR  239 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccC--Cccc-eEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            5778899999999999999953222221  1111 133444468889999999999999999999777777666666544


Q ss_pred             CCcccccc--cc-ccccccc--ccCCcC----Cccc--CCCceEEEcCCCcccCHHHHHHHHHhcCCe-eE--EEEeec-
Q 002093          545 PKEFVEVA--SG-EAEKSVA--SVDSVS----GIVK--DSPHKIFIGGISRTLSSKMVMEIVCAFGPL-KA--YHFEVN-  609 (967)
Q Consensus       545 p~~~~~~~--~~-~~~~~~~--~~~~~~----~~~~--~~~~~L~V~nLp~~~teedL~e~Fsk~G~V-~~--v~l~~d-  609 (967)
                      .+....++  .. ..+....  .....+    ..++  ....+|-+.+||+..+.++|.+||..|..- ..  |.++.+ 
T Consensus       240 STaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~  319 (508)
T KOG1365|consen  240 STAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG  319 (508)
T ss_pred             HhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC
Confidence            22111000  00 0000000  000011    1111  125789999999999999999999988653 22  566555 


Q ss_pred             CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          610 EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       610 ~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .+...|-|||+|.+.+.|..|.+..+.....++-|.|-.++.
T Consensus       320 qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S~  361 (508)
T KOG1365|consen  320 QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCSV  361 (508)
T ss_pred             CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeeccH
Confidence            345589999999999999999998888888899999987643

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

Probab=98.53  E-value=7.8e-07  Score=101.30  Aligned_cols=164  Identities=20%  Similarity=0.237  Sum_probs=107.6

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCc---EEEEEEcCHHHHHHHHHccCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG---QAFVEFLTAEDASAALCCDGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG---~aFVeF~~~e~A~~Al~lng~~l~  536 (967)
                      ..-.++||||+||.+++|++|...|-.||.+.-  .++.  .......-..+|   |+|+.|.+...+..-|.  ...+.
T Consensus       256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~V--dWP~--k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~--aC~~~  329 (520)
T KOG0129|consen  256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVKV--DWPG--KANSRGRAPPKGSYGYVFLVFEDERSVQSLLS--ACSEG  329 (520)
T ss_pred             cccccceeecCCCccccHHHHHhhcccccceEe--ecCC--CccccccCCCCCcccEEEEEecchHHHHHHHH--HHhhc
Confidence            355789999999999999999999999995221  2221  112222234566   99999999988776554  11111


Q ss_pred             cc--eeEEeCCCcccccccccccccc--cccCC--cCCcccCCCceEEEcCCCcccCHHHHHHHHH-hcCCeeEEEEeec
Q 002093          537 GS--ILKIKRPKEFVEVASGEAEKSV--ASVDS--VSGIVKDSPHKIFIGGISRTLSSKMVMEIVC-AFGPLKAYHFEVN  609 (967)
Q Consensus       537 Gr--~l~V~rp~~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~L~V~nLp~~~teedL~e~Fs-k~G~V~~v~l~~d  609 (967)
                      ..  -|.|.-+......   .....+  .....  ......++..+||||+||.-++-++|-.+|+ -||.|..+-|..|
T Consensus       330 ~~~~yf~vss~~~k~k~---VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD  406 (520)
T KOG0129|consen  330 EGNYYFKVSSPTIKDKE---VQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD  406 (520)
T ss_pred             ccceEEEEecCcccccc---eeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccC
Confidence            11  1122211111000   000000  00110  1233456789999999999999999999999 6999999999777


Q ss_pred             CCC--CCCEEEEeecCcchHHHHHH
Q 002093          610 EDH--EEPCAFIEYVDQLVTPKAIA  632 (967)
Q Consensus       610 ~~~--skG~aFVeF~~~e~A~~Al~  632 (967)
                      +.-  .+|-|=|.|.+..+-.+||.
T Consensus       407 ~k~KYPkGaGRVtFsnqqsYi~AIs  431 (520)
T KOG0129|consen  407 PKLKYPKGAGRVTFSNQQAYIKAIS  431 (520)
T ss_pred             cccCCCCCcceeeecccHHHHHHHh
Confidence            432  49999999999999999986

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.42  E-value=1.8e-07  Score=111.79  Aligned_cols=161  Identities=20%  Similarity=0.242  Sum_probs=126.6

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ....+++||+|||+..+++.+|+..|..+|.+..   |    -|..-.++...-||||.|.+...|-.|.. +.+..|..
T Consensus       368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~---V----DiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~  440 (975)
T KOG0112|consen  368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEE---V----DIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGN  440 (975)
T ss_pred             chhhhhhhhhcCcccchhhhhhhhhhhhhccccc---c----ccccCCCCcccchhhhhhhccccCcccchhhcCCcccc
Confidence            4567889999999999999999999999996333   2    12222356667899999999999999988 88876654


Q ss_pred             ceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEE
Q 002093          538 SILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCA  617 (967)
Q Consensus       538 r~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~a  617 (967)
                      -.++++.         +             +......+.+++++|..++....|...|..||.|..|.+-.    +..|+
T Consensus       441 g~~r~gl---------G-------------~~kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----gq~ya  494 (975)
T KOG0112|consen  441 GTHRIGL---------G-------------QPKSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----GQPYA  494 (975)
T ss_pred             Ccccccc---------c-------------ccccccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----CCcce
Confidence            4444441         0             00122367899999999999999999999999999877633    46799


Q ss_pred             EEeecCcchHHHHHHHhCCCccCC--eEEEEEEcccC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLD  652 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~~  652 (967)
                      ||+|.+...++.|+..|-|..|+|  +.|.|-++.+.
T Consensus       495 yi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~  531 (975)
T KOG0112|consen  495 YIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPP  531 (975)
T ss_pred             eeecccCccchhhHHHHhcCcCCCCCcccccccccCC
Confidence            999999999999999999999976  45888887543

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=98.41  E-value=3.7e-06  Score=97.82  Aligned_cols=182  Identities=8%  Similarity=0.030  Sum_probs=127.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...+.+-+.+.+++..+.++++||...    .+..+.   +.++...+...|.++|+|..+.++.+|+.-|...+-.+.+
T Consensus       309 ~d~~y~~~~gm~fn~~~nd~rkfF~g~----~~~~~~---l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~  381 (944)
T KOG4307|consen  309 SDKYYNNYKGMEFNNDFNDGRKFFPGR----NAQSTD---LSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPF  381 (944)
T ss_pred             chhheeeecccccccccchhhhhcCcc----cccccc---hhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcce
Confidence            445566678999999999999998332    122221   2233333444899999999999999999999999999999


Q ss_pred             EEeCCCcccccccc-----cc----ccccc----------ccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCe
Q 002093          541 KIKRPKEFVEVASG-----EA----EKSVA----------SVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPL  601 (967)
Q Consensus       541 ~V~rp~~~~~~~~~-----~~----~~~~~----------~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V  601 (967)
                      .|.-+.+..-..+.     ..    ..+..          ..+...........+|||.+||..+++.++.++|.....|
T Consensus       382 q~~P~g~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~V  461 (944)
T KOG4307|consen  382 QTGPPGNLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAV  461 (944)
T ss_pred             eecCCCccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhh
Confidence            88765532211000     00    00000          0000001112345799999999999999999999998888


Q ss_pred             eE-EEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          602 KA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       602 ~~-v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ++ |.|... ++.-.+.|||.|..++++..|+..-+-+.++.+.|.|...
T Consensus       462 ed~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si  511 (944)
T KOG4307|consen  462 EDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI  511 (944)
T ss_pred             hheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence            77 666444 3445899999999999999998877888889999999654

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.40  E-value=7.5e-07  Score=93.08  Aligned_cols=133  Identities=12%  Similarity=0.195  Sum_probs=104.5

Q ss_pred             eeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcC
Q 002093          503 IGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGG  581 (967)
Q Consensus       503 ~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~n  581 (967)
                      +...-+.-.+++|+.|.....-.++-. -++..+.-.++++...+.|..+...              .-.....+||.|.
T Consensus       132 v~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedPsl~--------------ew~~~DfRIfcgd  197 (290)
T KOG0226|consen  132 VRDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSWEDPSLA--------------EWDEDDFRIFCGD  197 (290)
T ss_pred             hhcCCCccCcccccCcchhhhhhhhccccccccccCcceeeccccccCCcccc--------------cCccccceeeccc
Confidence            333445668999999998877777766 6666666666777765555443110              0123457899999


Q ss_pred             CCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          582 ISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       582 Lp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      |...++++-|-..|.+|-.....++++++  +.++||+||-|.++.++..|+..|+|..++.++|++..+
T Consensus       198 lgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS  267 (290)
T KOG0226|consen  198 LGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS  267 (290)
T ss_pred             ccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence            99999999999999999888778888885  457999999999999999999999999999999987654

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=98.34  E-value=1.9e-07  Score=102.25  Aligned_cols=174  Identities=12%  Similarity=0.081  Sum_probs=122.6

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      .|.|.||.+++|.++++.||..+|+|..+...+   .+-++.+......|||.|.+..++..|..|.+++|-|+.|.|..
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp---~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p   85 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYP---NVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRP   85 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccC---CCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEe
Confidence            789999999999999999999999866655443   24555556667899999999999999999999999999988864


Q ss_pred             CCccccc--------c--ccc---cccc--------ccccCCcCCc---------------ccCCCceEEEcCCCcccCH
Q 002093          545 PKEFVEV--------A--SGE---AEKS--------VASVDSVSGI---------------VKDSPHKIFIGGISRTLSS  588 (967)
Q Consensus       545 p~~~~~~--------~--~~~---~~~~--------~~~~~~~~~~---------------~~~~~~~L~V~nLp~~~te  588 (967)
                      ..+-..+        .  ...   ..+.        +...+..++.               +.....+++|++|+..+..
T Consensus        86 ~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l  165 (479)
T KOG4676|consen   86 YGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAIL  165 (479)
T ss_pred             cCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcc
Confidence            3221111        0  000   0000        0000000000               0011256899999999999


Q ss_pred             HHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEE
Q 002093          589 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  644 (967)
Q Consensus       589 edL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I  644 (967)
                      .++.+.|..+|.|....+...  ....+|-|+|....+...|+. ++|+.|.-+..
T Consensus       166 ~e~~e~f~r~Gev~ya~~ask--~~s~~c~~sf~~qts~~halr-~~gre~k~qhs  218 (479)
T KOG4676|consen  166 PESGESFERKGEVSYAHTASK--SRSSSCSHSFRKQTSSKHALR-SHGRERKRQHS  218 (479)
T ss_pred             hhhhhhhhhcchhhhhhhhcc--CCCcchhhhHhhhhhHHHHHH-hcchhhhhhhh
Confidence            999999999999987766332  235678899999999999996 78888873333

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.32  E-value=5.9e-08  Score=115.43  Aligned_cols=149  Identities=19%  Similarity=0.202  Sum_probs=122.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      +...++||.||++.+.+.+|...|..+|.   +..++   .++....++-+|+|||+|..++++.+|+.++-..+.|   
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~---~e~vq---i~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g---  735 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGT---IEVVQ---IVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG---  735 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccch---hhhHH---HHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh---
Confidence            45678999999999999999999999884   22222   2245566788999999999999999999965554444   


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFI  619 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFV  619 (967)
                                                       ...|||.|.|+..|.+.|+.+|.++|.+.+++++... +..+|.|||
T Consensus       736 ---------------------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v  782 (881)
T KOG0128|consen  736 ---------------------------------KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARV  782 (881)
T ss_pred             ---------------------------------hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceec
Confidence                                             2357889999999999999999999999999887764 356999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .|.+..++.+++....++.+.-+.+.|..+.|
T Consensus       783 ~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp  814 (881)
T KOG0128|consen  783 DYNTEADASRKVASVDVAGKRENNGEVQVSNP  814 (881)
T ss_pred             cCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence            99999999999998888888777777766544

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.28  E-value=8e-08  Score=114.33  Aligned_cols=239  Identities=15%  Similarity=0.113  Sum_probs=165.9

Q ss_pred             CCCEEEEeCCCCcchHH-HHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEK-ALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~Tee-dL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ..+.+++.|+.+..... ..+..|..+|.+..+....      .-..-....++++++.....+..|....+..+.++.+
T Consensus       570 ~~~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~------~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~  643 (881)
T KOG0128|consen  570 ERREKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPK------RGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSA  643 (881)
T ss_pred             hhhhhcccCCCcchhhHHhhHHHhhcccccccccCcc------ccccccccchhhhhhccccchhhcccccccccCCccc
Confidence            34567888888877665 5667777776432221111      0111112237899999999999999988888888888


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEe--ecCCCCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE--VNEDHEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~--~d~~~skG~aF  618 (967)
                      .|..         ..+......... .........++||.||+..+.+.+|...|..+|.+..+++.  .+.+.-+|+||
T Consensus       644 av~~---------ad~~~~~~~~kv-s~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y  713 (881)
T KOG0128|consen  644 AVGL---------ADAEEKEENFKV-SPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAY  713 (881)
T ss_pred             cCCC---------CCchhhhhccCc-CchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhcccccccee
Confidence            7762         111111111111 00111123578999999999999999999999998887665  33444589999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCCh
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSE  698 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~  698 (967)
                      |+|..++.+.+|+....+..++...+.|.             +.+++                                 
T Consensus       714 ~~F~~~~~~~aaV~f~d~~~~gK~~v~i~-------------g~pf~---------------------------------  747 (881)
T KOG0128|consen  714 VEFLKPEHAGAAVAFRDSCFFGKISVAIS-------------GPPFQ---------------------------------  747 (881)
T ss_pred             eEeecCCchhhhhhhhhhhhhhhhhhhee-------------CCCCC---------------------------------
Confidence            99999999999998666665552222210             11111                                 


Q ss_pred             HHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEE
Q 002093          699 LEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  766 (967)
Q Consensus       699 ~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~  766 (967)
                          .+.+.++.+|.++|++.++.++....|..+|.+||.|.+..+|..+...+.+..+..+.+.+..
T Consensus       748 ----gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  748 ----GTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQV  811 (881)
T ss_pred             ----CchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence                1124578899999999999999888999999999999999999999888888877777766654

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.25  E-value=4.6e-07  Score=92.65  Aligned_cols=153  Identities=12%  Similarity=0.090  Sum_probs=120.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ....+|||+|+...++++-|.++|-..|+|..|.|..+.+....||||.|.+...+.-|++.|||..+.++.|.|+.-+-
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G   86 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCG   86 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccC
Confidence            34679999999999999999999999999999999887665555999999999999999999999999999998866532


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCc
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNI  731 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~  731 (967)
                      +...                                    .|   +..--++|   +..+|..-|.++-+.++.+..|..
T Consensus        87 ~sha------------------------------------pl---d~r~~~ei---~~~v~s~a~p~~~~R~~~~~d~rn  124 (267)
T KOG4454|consen   87 NSHA------------------------------------PL---DERVTEEI---LYEVFSQAGPIEGVRIPTDNDGRN  124 (267)
T ss_pred             CCcc------------------------------------hh---hhhcchhh---heeeecccCCCCCccccccccCCc
Confidence            2110                                    00   00000122   345577789999999999988888


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEE
Q 002093          732 STIQACEGNENTASAGVGQNLTNDETNEKGERLEE  766 (967)
Q Consensus       732 ~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~  766 (967)
                      ..++|+.|-.....=.|+..-.|.++.-+.+.++.
T Consensus       125 rn~~~~~~qr~~~~P~~~~~y~~l~~~~~~~~~gg  159 (267)
T KOG4454|consen  125 RNFGFVTYQRLCAVPFALDLYQGLELFQKKVTIGG  159 (267)
T ss_pred             cCccchhhhhhhcCcHHhhhhcccCcCCCCccccc
Confidence            88999999888888888888888887777665544

>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=1.5e-06  Score=94.25  Aligned_cols=80  Identities=13%  Similarity=0.200  Sum_probs=73.4

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .++.+.|||--|.+.+++++|.-+|+.||+|..|.|++|..+  +--||||+|.+.+++.+|.-.|++..|..+.|.|-+
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF  315 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF  315 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence            445689999999999999999999999999999999999544  577999999999999999999999999999999988


Q ss_pred             cc
Q 002093          649 AV  650 (967)
Q Consensus       649 a~  650 (967)
                      +.
T Consensus       316 SQ  317 (479)
T KOG0415|consen  316 SQ  317 (479)
T ss_pred             hh
Confidence            73

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.21  E-value=1.4e-06  Score=96.10  Aligned_cols=176  Identities=15%  Similarity=0.143  Sum_probs=128.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCc-eeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGC-SFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~-~l~Gr~l  540 (967)
                      ...++|+|++...+.+.++..++...|......      .........++||++|.|...+.+..||++.+. .+.+..+
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~------~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~  160 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDAR------SSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKG  160 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccch------hhhhccccccccceeeccccHHHHHHHHHhhhccccccccc
Confidence            456899999999999999999998888433211      112234577899999999999999999997774 5555444


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEE-EcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIF-IGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCA  617 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~-V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~a  617 (967)
                      ..-..+.....          ..+...........++| |++|+..+++++|+..|..+|.|..+++..+..  ..+||+
T Consensus       161 ~~dl~~~~~~~----------~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a  230 (285)
T KOG4210|consen  161 EKDLNTRRGLR----------PKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFA  230 (285)
T ss_pred             cCccccccccc----------ccchhcccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhh
Confidence            33221111100          00000001112234555 999999999999999999999999999877754  359999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ||.|.+...+.+++.. +...++++++.+.+..+...
T Consensus       231 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  266 (285)
T KOG4210|consen  231 YVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPK  266 (285)
T ss_pred             hhhhhhchhHHHHhhc-ccCcccCcccccccCCCCcc
Confidence            9999999999999987 88999999999988876544

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=98.19  E-value=2.5e-06  Score=100.64  Aligned_cols=74  Identities=23%  Similarity=0.436  Sum_probs=70.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++||||+|+..+++.+|..+|+.||.|.+|.++.    .+|||||.+....+|.+|+..|....+.++.|+|.|+..
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~----~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g  494 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP----PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG  494 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeecc----CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence            47899999999999999999999999999998876    499999999999999999999999999999999999954

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=98.17  E-value=8.5e-07  Score=93.26  Aligned_cols=50  Identities=22%  Similarity=0.323  Sum_probs=42.8

Q ss_pred             CCCCcccccceEEEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHH
Q 002093          913 PNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYR  962 (967)
Q Consensus       913 ~~~~~v~~~G~VyVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~  962 (967)
                      |+....--.|||||+|...|+|++|++.||||||+|+.|+|.++|..-+.
T Consensus       102 c~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~r  151 (260)
T KOG2202|consen  102 CDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFR  151 (260)
T ss_pred             hcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchh
Confidence            55522222699999999999999999999999999999999999987664

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]

Probab=98.14  E-value=5.1e-06  Score=84.86  Aligned_cols=80  Identities=14%  Similarity=0.250  Sum_probs=71.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhc-CCeeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAF-GPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~-G~V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....++|..+|..+-+..+..+|.+| |.|..+++-++  ++.++|||||+|.+.+.|.-|-+.||++.|.|+.|.|.+-
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vm  127 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVM  127 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEe
Confidence            35678999999999999999999998 77777888777  4567999999999999999999999999999999999888


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .|.
T Consensus       128 ppe  130 (214)
T KOG4208|consen  128 PPE  130 (214)
T ss_pred             Cch
Confidence            766

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.13  E-value=2.7e-06  Score=90.22  Aligned_cols=86  Identities=20%  Similarity=0.239  Sum_probs=69.8

Q ss_pred             CCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCC--CcceeEEEEeCCHHHHHHHHHH
Q 002093          674 LLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS--NISTIQACEGNENTASAGVGQN  751 (967)
Q Consensus       674 ~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g--~~~G~gFVeF~~~e~A~~Ai~~  751 (967)
                      ....|++||.|.|||.+.+.   +    +++.+.++++|++||+|.+|.|...+.-  .----.||+|...++|.+|+--
T Consensus       276 Il~~ptkvlllrnmVg~gev---d----~elede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vd  348 (378)
T KOG1996|consen  276 ILKCPTKVLLLRNMVGAGEV---D----EELEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVD  348 (378)
T ss_pred             HHhcchHHHHhhhhcCcccc---c----HHHHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHh
Confidence            34678999999999998876   3    3566778999999999999999876321  1122479999999999999999


Q ss_pred             hCCCccCCCcceeEE
Q 002093          752 LTNDETNEKGERLEE  766 (967)
Q Consensus       752 LnG~~~~~r~~~v~~  766 (967)
                      |||+.|+|+...-..
T Consensus       349 lnGRyFGGr~v~A~F  363 (378)
T KOG1996|consen  349 LNGRYFGGRVVSACF  363 (378)
T ss_pred             cCCceecceeeehee
Confidence            999999999876543

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]

Probab=98.10  E-value=3.6e-06  Score=85.97  Aligned_cols=76  Identities=21%  Similarity=0.240  Sum_probs=63.9

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..-+||+.||..+.+.+|..+|.+||-  -+..+.   .-.+..||.++|||||+|.+++.|..|-+ ||+..|.|+-|.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g--~v~r~r---lsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~  123 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGG--TVTRFR---LSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLE  123 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCC--eeEEEE---eecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheee
Confidence            446899999999999999999999961  111221   22566899999999999999999999999 999999999998


Q ss_pred             Ee
Q 002093          542 IK  543 (967)
Q Consensus       542 V~  543 (967)
                      +.
T Consensus       124 c~  125 (214)
T KOG4208|consen  124 CH  125 (214)
T ss_pred             eE
Confidence            87

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.09  E-value=3e-06  Score=101.65  Aligned_cols=158  Identities=14%  Similarity=0.179  Sum_probs=120.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...+||++||+..+++.+|+..|..+|.|..|.|-.. .+...-|+||.|.+...+..|+..+.|..|+.-.+.+.+..+
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~  450 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQP  450 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccccc
Confidence            4689999999999999999999999999999988554 234566999999999999999999998877655555544432


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCc
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNI  731 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~  731 (967)
                      .                       ..+++-+++..+.....+            .-+..+|..||.|..|.+-.   |  
T Consensus       451 k-----------------------st~ttr~~sgglg~w~p~------------~~l~r~fd~fGpir~Idy~h---g--  490 (975)
T KOG0112|consen  451 K-----------------------STPTTRLQSGGLGPWSPV------------SRLNREFDRFGPIRIIDYRH---G--  490 (975)
T ss_pred             c-----------------------cccceeeccCCCCCCChH------------HHHHHHhhccCcceeeeccc---C--
Confidence            1                       123344444444321111            24678899999999877754   2  


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeecc
Q 002093          732 STIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDH  770 (967)
Q Consensus       732 ~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~  770 (967)
                      --|+||+|.+...|+.|+..|-|..|++-...+...+.+
T Consensus       491 q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~  529 (975)
T KOG0112|consen  491 QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLAS  529 (975)
T ss_pred             CcceeeecccCccchhhHHHHhcCcCCCCCccccccccc
Confidence            347999999999999999999999999988776555443

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.09  E-value=9.9e-07  Score=93.47  Aligned_cols=61  Identities=30%  Similarity=0.494  Sum_probs=49.8

Q ss_pred             ccCCCCCCCCCCC-Cc-----ccc--------cceEEEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHHh
Q 002093          903 VENGDNENQDPNQ-GH-----IFE--------PGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRA  963 (967)
Q Consensus       903 ~e~~~~~~~e~~~-~~-----v~~--------~G~VyVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~  963 (967)
                      .|.++++++||.+ +.     ||.        +=-|||+|.+++.|.+|+--||||||+||+|.|.|.-+..|..
T Consensus       297 ~elede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs~  371 (378)
T KOG1996|consen  297 EELEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFSN  371 (378)
T ss_pred             HHHHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhhh
Confidence            4556677788876 22     221        3458999999999999999999999999999999999988864

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.08  E-value=1.5e-05  Score=87.02  Aligned_cols=75  Identities=19%  Similarity=0.346  Sum_probs=66.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~~a~~  651 (967)
                      ...+|||++|-..+++.+|++.|.+||.|+.|.+..    .+++|||+|.+.++|..|...+ +...+.|+.|+|.|..+
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~----~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP----RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec----ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            347899999999999999999999999999998876    4789999999999999777554 55678999999999977

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.07  E-value=8.3e-06  Score=88.88  Aligned_cols=77  Identities=25%  Similarity=0.263  Sum_probs=65.8

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH--ccCceee
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC--CDGCSFS  536 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~--lng~~l~  536 (967)
                      .+....+||||+|-..++|.+|++.|.+||.            |..+..-..++.|||+|.+-+.|+.|.+  +|...+.
T Consensus       224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqyGe------------irsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~  291 (377)
T KOG0153|consen  224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQYGE------------IRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVIN  291 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhhcCC------------eeeEEeecccccceeeehhhHHHHHHHHhhcceeeec
Confidence            3456679999999999999999999999994            3444455568899999999999999999  8989999


Q ss_pred             cceeEEeCCCc
Q 002093          537 GSILKIKRPKE  547 (967)
Q Consensus       537 Gr~l~V~rp~~  547 (967)
                      |+.|+|.|...
T Consensus       292 G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  292 GFRLKIKWGRP  302 (377)
T ss_pred             ceEEEEEeCCC
Confidence            99999987544

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=98.06  E-value=1e-05  Score=92.03  Aligned_cols=83  Identities=14%  Similarity=0.217  Sum_probs=70.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...+.|||.+|...+-..+|++||+.||+++|...      |.+..+...+.|+||++.+.++|.+||. |+...|.|+.
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKV------VTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrm  476 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKV------VTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRM  476 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHhcceeceee------eecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhccee
Confidence            45688999999999999999999999998877533      3445555567899999999999999999 9999999999


Q ss_pred             eEEeCCCccc
Q 002093          540 LKIKRPKEFV  549 (967)
Q Consensus       540 l~V~rp~~~~  549 (967)
                      |.|.++++-+
T Consensus       477 ISVEkaKNEp  486 (940)
T KOG4661|consen  477 ISVEKAKNEP  486 (940)
T ss_pred             eeeeecccCc
Confidence            9999776544

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=98.02  E-value=6.6e-05  Score=87.80  Aligned_cols=178  Identities=9%  Similarity=-0.061  Sum_probs=114.1

Q ss_pred             EEcCCCcccCHHHHHHHHHhcCCeeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002093          578 FIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  655 (967)
Q Consensus       578 ~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~  655 (967)
                      -+.+++++....++++||.-.- |.++.|..+  .....|.+||+|....++++|+. -|...+-.+.|.|..+....-.
T Consensus       315 ~~~gm~fn~~~nd~rkfF~g~~-~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~-rn~~~~~~R~~q~~P~g~~~~~  392 (944)
T KOG4307|consen  315 NYKGMEFNNDFNDGRKFFPGRN-AQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFT-RNPSDDVNRPFQTGPPGNLGRN  392 (944)
T ss_pred             eecccccccccchhhhhcCccc-ccccchhhhhcCCCcCCceEEEecCcchHHHHHh-cCchhhhhcceeecCCCccccc
Confidence            3457778888889999985421 223333333  22348999999999999999986 4556667777777554211100


Q ss_pred             C----------CCCCC-CCC-CCC------CCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCC
Q 002093          656 M----------DNSGN-PPF-HGI------PKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS  717 (967)
Q Consensus       656 ~----------~~~~~-~~~-~~i------~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~  717 (967)
                      .          ...+. ..- .+.      +....+.....+.||+|..+.....+            .++...|..--.
T Consensus       393 ~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~------------~~~v~~f~~~~~  460 (944)
T KOG4307|consen  393 GAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPI------------VPPVNKFMGAAA  460 (944)
T ss_pred             cCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccc------------cchhhhhhhhhh
Confidence            0          00000 000 000      11112233455789999988665444            256666776666


Q ss_pred             eEE-EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          718 VKS-VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       718 V~~-V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      |+. |.|.+-+++...+.|||.|...+++..|...-.-..++-+.|.|....+
T Consensus       461 Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~~  513 (944)
T KOG4307|consen  461 VEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIAD  513 (944)
T ss_pred             hhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeechhh
Confidence            776 7777778888999999999999999999887777777777777755544

>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]

Probab=98.02  E-value=1.2e-05  Score=92.63  Aligned_cols=173  Identities=18%  Similarity=0.182  Sum_probs=109.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|+|-|||..+++++|..+|..||++.++..           +....|..||+|.|.-+|+.|+. ||+..|.|+
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----------t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~  140 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----------TPNKRGIVFVEFYDVRDAERALKALNRREIAGK  140 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----------ccccCceEEEEEeehHhHHHHHHHHHHHHhhhh
Confidence            356789999999999999999999999998666422           33468999999999999999999 999999999


Q ss_pred             eeEEeCCCcccccccccc-cccccccC-CcCCcccCC--CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCC
Q 002093          539 ILKIKRPKEFVEVASGEA-EKSVASVD-SVSGIVKDS--PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEE  614 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~--~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~sk  614 (967)
                      .|+  ++........-.. ..-+.... .....++..  ...+|+. |++..+..-+...|+-+|.+.. +.   ...-.
T Consensus       141 ~~k--~~~~~~~~~~~~~~~~~~~~~~~p~a~s~pgg~~~~~~~g~-l~P~~s~~~~~~~~~~~~~~~~-~~---~~~~~  213 (549)
T KOG4660|consen  141 RIK--RPGGARRAMGLQSGTSFLNHFGSPLANSPPGGWPRGQLFGM-LSPTRSSILLEHISSVDGSSPG-RE---TPLLN  213 (549)
T ss_pred             hhc--CCCcccccchhcccchhhhhccchhhcCCCCCCcCCcceee-eccchhhhhhhcchhccCcccc-cc---ccchh
Confidence            988  3221111000000 00000000 000011111  2334443 8888887666666777777654 32   11112


Q ss_pred             CEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      -.-|++|.+..++..++..+ |..+.+....+..+.+
T Consensus       214 hq~~~~~~~~~s~a~~~~~~-G~~~s~~~~v~t~S~~  249 (549)
T KOG4660|consen  214 HQRFVEFADNRSYAFSEPRG-GFLISNSSGVITFSGP  249 (549)
T ss_pred             hhhhhhhccccchhhcccCC-ceecCCCCceEEecCC
Confidence            36788888888886666533 6666666655555433

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=98.01  E-value=1e-05  Score=92.08  Aligned_cols=78  Identities=14%  Similarity=0.266  Sum_probs=71.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|+|.+|...+.-.+|+.+|++||.|.-..|+.+..+  .+.|+||++.+.++|.+||..||-..|.|+.|.|..+..
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN  484 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN  484 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence            478999999999999999999999999999999887432  388999999999999999999999999999999998854

>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=1.4e-05  Score=86.88  Aligned_cols=78  Identities=17%  Similarity=0.156  Sum_probs=71.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      .++...|||--|.+-+|.++|.-+|+.||.+.+..      .|.+..+|.+..||||+|.+.+++++|+- |++..|.++
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sce------VIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDr  309 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCE------VIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDR  309 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccceeee------EEecccccchhheeeeeecchhhHHHHHhhhcceeeccc
Confidence            45678999999999999999999999999866653      45788999999999999999999999999 999999999


Q ss_pred             eeEEe
Q 002093          539 ILKIK  543 (967)
Q Consensus       539 ~l~V~  543 (967)
                      .|.|.
T Consensus       310 RIHVD  314 (479)
T KOG0415|consen  310 RIHVD  314 (479)
T ss_pred             eEEee
Confidence            99996

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=97.83  E-value=1.1e-05  Score=88.89  Aligned_cols=16  Identities=63%  Similarity=0.773  Sum_probs=6.9

Q ss_pred             CCccCCCCcCCCCCcc
Q 002093          292 REREDRNRRSLSLSPR  307 (967)
Q Consensus       292 Rdr~~rr~RSrsr~~R  307 (967)
                      +++++||+||++++||
T Consensus       352 rerrrRRSrSrsRspR  367 (479)
T KOG4676|consen  352 RERRRRRSRSRSRSPR  367 (479)
T ss_pred             hhhhhhhccccccCCC
Confidence            3333444444444443

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

Probab=97.77  E-value=0.00029  Score=80.91  Aligned_cols=160  Identities=14%  Similarity=0.182  Sum_probs=103.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-----CCCC---EEEEeecCcchHHHHHHHhCCCccCCeEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-----HEEP---CAFIEYVDQLVTPKAIAGLNGLKVGGQVL  644 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-----~skG---~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I  644 (967)
                      -.++||||+||..++|+.|...|..||.+. |.+....+     ..+|   |+|+-|.+...+..-+.+.   .++...+
T Consensus       258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC---~~~~~~~  333 (520)
T KOG0129|consen  258 YSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC---SEGEGNY  333 (520)
T ss_pred             cccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH---hhcccce
Confidence            357899999999999999999999999874 55542211     2366   9999999988877655433   2344444


Q ss_pred             EEEEcccCCCcCCCC------CCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCe
Q 002093          645 TAVQAVLDGSIMDNS------GNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSV  718 (967)
Q Consensus       645 ~V~~a~~~~~~~~~~------~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V  718 (967)
                      .++...+.-......      ....+. . ..  ...-.|.++++|..+.-+     |+-+++..|++|+      ||.|
T Consensus       334 yf~vss~~~k~k~VQIrPW~laDs~fv-~-d~--sq~lDprrTVFVGgvprp-----l~A~eLA~imd~l------yGgV  398 (520)
T KOG0129|consen  334 YFKVSSPTIKDKEVQIRPWVLADSDFV-L-DH--NQPIDPRRTVFVGGLPRP-----LTAEELAMIMEDL------FGGV  398 (520)
T ss_pred             EEEEecCcccccceeEEeeEeccchhh-h-cc--CcccCccceEEecCCCCc-----chHHHHHHHHHHh------cCce
Confidence            443333332221100      000000 0 00  011246789999888764     2445556666554      9999


Q ss_pred             EEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHH
Q 002093          719 KSVNVVKY-GDSNISTIQACEGNENTASAGVGQN  751 (967)
Q Consensus       719 ~~V~I~r~-~~g~~~G~gFVeF~~~e~A~~Ai~~  751 (967)
                      ..|-|..| .-..-+|-|=|+|.+..+=.+||.+
T Consensus       399 ~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  399 LYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             EEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence            99999988 4566677777999999988888653

>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]

Probab=97.76  E-value=1.6e-05  Score=91.59  Aligned_cols=70  Identities=19%  Similarity=0.383  Sum_probs=64.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      ...+|+|-|||..+++++|..+|+.||.|+.|+.-..   ..|.+||+|.++-+|..|+++|++..+.|+.|.
T Consensus        74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~---~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN---KRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc---cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            4678999999999999999999999999998765433   689999999999999999999999999999998

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=97.72  E-value=3.6e-06  Score=93.05  Aligned_cols=151  Identities=20%  Similarity=0.234  Sum_probs=117.5

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC-ceeecceeE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSGSILK  541 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng-~~l~Gr~l~  541 (967)
                      ..||+|||.+.++..+|..+|...-       +.     .....-...|||||.+.+...|.+|++ ++| ..+.|+.+.
T Consensus         2 nklyignL~p~~~psdl~svfg~ak-------~~-----~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e   69 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAK-------IP-----GSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQE   69 (584)
T ss_pred             CcccccccCCCCChHHHHHHhcccc-------CC-----CCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceee
Confidence            3699999999999999999995531       11     111222346999999999999999999 888 668898888


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEee
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEY  621 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF  621 (967)
                      |..    ..+                  .....+++.|.|+|+...++.|-.++..||.|..|..+. ..+..-..-|+|
T Consensus        70 ~~~----sv~------------------kkqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvn-t~~etavvnvty  126 (584)
T KOG2193|consen   70 VEH----SVP------------------KKQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVN-TDSETAVVNVTY  126 (584)
T ss_pred             ccc----hhh------------------HHHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhc-cchHHHHHHHHH
Confidence            752    100                  011245688999999999999999999999999886532 222344556889


Q ss_pred             cCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          622 VDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       622 ~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+.+.+..|+..|+|..|....++|.|-
T Consensus       127 ~~~~~~~~ai~kl~g~Q~en~~~k~~Yi  154 (584)
T KOG2193|consen  127 SAQQQHRQAIHKLNGPQLENQHLKVGYI  154 (584)
T ss_pred             HHHHHHHHHHHhhcchHhhhhhhhcccC
Confidence            9999999999999999999999999885

>PF15519 RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein; PDB: 3S6E_A 2LQ5_A

Probab=97.72  E-value=9.6e-06  Score=70.94  Aligned_cols=20  Identities=15%  Similarity=0.064  Sum_probs=14.8

Q ss_pred             ccccccccccCCCcchhccc
Q 002093          859 NIQLEHMSEENKSSAKEDLN  878 (967)
Q Consensus       859 ~i~~~c~~~~n~f~~~~e~~  878 (967)
                      .|+++||+|+|||||.+|+.
T Consensus        51 ~~aS~C~lLkNMFDP~~Ete   70 (73)
T PF15519_consen   51 PIASRCFLLKNMFDPAEETE   70 (73)
T ss_dssp             S---SEEEEESSS-TTCGGS
T ss_pred             CCCCceeeeecCCCcccccC
Confidence            38999999999999999887

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

Probab=97.71  E-value=0.00011  Score=84.72  Aligned_cols=76  Identities=21%  Similarity=0.208  Sum_probs=60.4

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ...+|||+|||+++|+.+|.++|..||.+.... |    .++. .-+....||||+|.+.+++..||..+-+.++|+.|.
T Consensus       287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~-I----~vr~-~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~  360 (419)
T KOG0116|consen  287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGG-I----QVRS-PGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLN  360 (419)
T ss_pred             cccceEeecCCCCCCHHHHHHHHhhcccccccc-e----EEec-cCCCcCceEEEEEeecchhhhhhhcCccccCCeeEE
Confidence            345699999999999999999999999644321 0    1121 124444899999999999999999888889999999


Q ss_pred             Ee
Q 002093          542 IK  543 (967)
Q Consensus       542 V~  543 (967)
                      |.
T Consensus       361 Ve  362 (419)
T KOG0116|consen  361 VE  362 (419)
T ss_pred             EE
Confidence            86

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=97.70  E-value=5.9e-05  Score=88.53  Aligned_cols=77  Identities=16%  Similarity=0.406  Sum_probs=69.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-----CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-----~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ..++|||+||++.++++.|...|..||+|..|+|....     ...+.|+||-|.+..+|.+|++.|+|+.+.+..+++.
T Consensus       173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~g  252 (877)
T KOG0151|consen  173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLG  252 (877)
T ss_pred             cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeec
Confidence            35789999999999999999999999999999887652     2347799999999999999999999999999999999


Q ss_pred             Ec
Q 002093          648 QA  649 (967)
Q Consensus       648 ~a  649 (967)
                      |+
T Consensus       253 Wg  254 (877)
T KOG0151|consen  253 WG  254 (877)
T ss_pred             cc
Confidence            88

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

Probab=97.69  E-value=7.3e-05  Score=80.01  Aligned_cols=76  Identities=26%  Similarity=0.337  Sum_probs=64.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ....+|+|.|||+.++++||++||..||.   +..+    .|-.-..|.+.|.|-|.|...++|..|++ +||+.+.|++
T Consensus        81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~---~~r~----~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~  153 (243)
T KOG0533|consen   81 TRSTKVNVSNLPYGVIDADLKELFAEFGE---LKRV----AVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRP  153 (243)
T ss_pred             CCcceeeeecCCcCcchHHHHHHHHHhcc---ceEE----eeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCce
Confidence            34468999999999999999999999983   2222    23344568899999999999999999999 9999999999


Q ss_pred             eEEe
Q 002093          540 LKIK  543 (967)
Q Consensus       540 l~V~  543 (967)
                      |++.
T Consensus       154 mk~~  157 (243)
T KOG0533|consen  154 MKIE  157 (243)
T ss_pred             eeeE
Confidence            9887

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=97.65  E-value=9.2e-05  Score=87.00  Aligned_cols=84  Identities=26%  Similarity=0.278  Sum_probs=69.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ......|||+||++.++++.|...|-.||++.++...-   |-......+.+.+|||-|-+-.+|+.||. |+|+.+.+.
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimw---pRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~  247 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMW---PRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEY  247 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccCcccceeeec---ccchhhhccccccceeeehhhhhHHHHHHHhcceeeeee
Confidence            44566899999999999999999999999877764332   22333445677899999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      +|++.|.+
T Consensus       248 e~K~gWgk  255 (877)
T KOG0151|consen  248 EMKLGWGK  255 (877)
T ss_pred             eeeecccc
Confidence            99998754

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

Probab=97.65  E-value=0.00013  Score=78.09  Aligned_cols=79  Identities=14%  Similarity=0.201  Sum_probs=70.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .+.+|+|.|||..++++||+++|..||.+..+.|..+. +.+.|.|-|.|...++|.+|++.+||..++|+.|.+....+
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            45789999999999999999999999988888777775 45789999999999999999999999999999998877644

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.64  E-value=4.8e-05  Score=84.12  Aligned_cols=171  Identities=11%  Similarity=0.029  Sum_probs=121.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEee--cCCCCCCEEEEeecCcchHHHHHHHhCC-CccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV--NEDHEEPCAFIEYVDQLVTPKAIAGLNG-LKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~--d~~~skG~aFVeF~~~e~A~~Al~~LnG-~~~~Gr~I~V~~a  649 (967)
                      ...++|++++...+.+.++..++..+|.+....+..  +...++|++++.|...+.+..||. +.+ ..+.+..+..-..
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~-~s~~~~~~~~~~~~dl~  165 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALE-ESGSKVLDGNKGEKDLN  165 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHH-hhhccccccccccCccc
Confidence            457899999999988888889999999877765543  345679999999999999999997 444 4555555543222


Q ss_pred             ccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-CC
Q 002093          650 VLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GD  728 (967)
Q Consensus       650 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~~  728 (967)
                      ..-.....          ..........+..++++.|+.....            .+||+..|..+|.|..|.++.. ..
T Consensus       166 ~~~~~~~~----------n~~~~~~~~~s~~~~~~~~~~f~~~------------~d~~~~~~~~~~~i~~~r~~~~~~s  223 (285)
T KOG4210|consen  166 TRRGLRPK----------NKLSRLSSGPSDTIFFVGELDFSLT------------RDDLKEHFVSSGEITSVRLPTDEES  223 (285)
T ss_pred             cccccccc----------chhcccccCccccceeecccccccc------------hHHHhhhccCcCcceeeccCCCCCc
Confidence            11110000          0000111233445555666644222            2567789999999999999976 57


Q ss_pred             CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          729 SNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       729 g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      +.+.||+||.|.+...+..|+.. ++..+.++++.+...
T Consensus       224 ~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  261 (285)
T KOG4210|consen  224 GDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEED  261 (285)
T ss_pred             cchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccC
Confidence            88999999999999999999998 899999998877443

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=97.57  E-value=4.5e-05  Score=80.59  Aligned_cols=69  Identities=17%  Similarity=0.154  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHh-cCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          699 LEVEEVLEDVRLECA-RFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       699 ~~~eei~eDIr~~f~-kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      ..++++.|||..+|+ +||+|+.++|..+-.....|-+||+|...++|++|++.|||+.|+|+.+....+
T Consensus        76 ~~~defyEd~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   76 RHEDEFYEDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            356888899999998 999999999998877777888999999999999999999999999999975443

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=97.49  E-value=0.00047  Score=63.74  Aligned_cols=77  Identities=16%  Similarity=0.261  Sum_probs=63.8

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhc--CCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccC----CeEEEE
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAF--GPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVG----GQVLTA  646 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~--G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~----Gr~I~V  646 (967)
                      ++|.|.|||...|.++|.+++...  |..--+.++.|-  ..+.|||||.|.+++.|..-.+.++|..+.    .+...|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            589999999999999999998764  556667888883  346999999999999999999999998763    566677


Q ss_pred             EEccc
Q 002093          647 VQAVL  651 (967)
Q Consensus       647 ~~a~~  651 (967)
                      .+|.-
T Consensus        82 ~yAri   86 (97)
T PF04059_consen   82 SYARI   86 (97)
T ss_pred             ehhHh
Confidence            77744

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.48  E-value=8.6e-05  Score=79.54  Aligned_cols=81  Identities=19%  Similarity=0.145  Sum_probs=68.5

Q ss_pred             cCCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeec
Q 002093          458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSG  537 (967)
Q Consensus       458 ~~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~G  537 (967)
                      +.......+||||+.+.+|.+++...|+.||.+.++.      ...+...+..+|||||+|.+.+.+..||.|||..|.|
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~t------i~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~  169 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVT------VPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPG  169 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCcccee------eeccccCCCcceeEEEecccHhhhHHHhhcCCccccc
Confidence            3456678999999999999999999999999654432      2245566779999999999999999999999999999


Q ss_pred             ceeEEeC
Q 002093          538 SILKIKR  544 (967)
Q Consensus       538 r~l~V~r  544 (967)
                      +.+.|..
T Consensus       170 ~~i~vt~  176 (231)
T KOG4209|consen  170 PAIEVTL  176 (231)
T ss_pred             ccceeee
Confidence            9999874

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=97.46  E-value=0.00014  Score=76.40  Aligned_cols=77  Identities=17%  Similarity=0.203  Sum_probs=68.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...-+||.|.|...++.+.|...|..|=      ..+....|.+..+++++||+||.|.++.++..||. |||..++.++
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfp------sf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrp  261 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFP------SFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRP  261 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhcc------chhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccch
Confidence            4456899999999999999999998874      34444567889999999999999999999999999 9999999999


Q ss_pred             eEEe
Q 002093          540 LKIK  543 (967)
Q Consensus       540 l~V~  543 (967)
                      |+++
T Consensus       262 iklR  265 (290)
T KOG0226|consen  262 IKLR  265 (290)
T ss_pred             hHhh
Confidence            9987

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

Probab=97.43  E-value=0.00027  Score=81.41  Aligned_cols=77  Identities=21%  Similarity=0.368  Sum_probs=64.3

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...|||.|||.+++..+|+++|..||.|+...|..-.  +...+||||+|.+.+.+..||.+ +-..++++.|.|.--.+
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEeccc
Confidence            3459999999999999999999999999987665432  33348999999999999999974 47889999999976433

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=97.43  E-value=0.00032  Score=64.86  Aligned_cols=69  Identities=17%  Similarity=0.268  Sum_probs=55.3

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      .||+|.|||...|.++|.+++..... .....+   -+-+|..++.+.|||||.|.+++.|..... ++|..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~-g~yDF~---YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~   71 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFK-GKYDFF---YLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP   71 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhcc-CcceEE---EeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence            48999999999999999999987642 111111   123677788899999999999999999999 9998774

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>PF06495 Transformer: Fruit fly transformer protein; InterPro: IPR010519 This family consists of transformer proteins from several Drosophila species and also from Ceratitis capitata (Mediterranean fruit fly)

Probab=97.28  E-value=0.00093  Score=66.57  Aligned_cols=18  Identities=17%  Similarity=-0.068  Sum_probs=14.1

Q ss_pred             ccCCCCCCCCCcCCCCCc
Q 002093          388 KKSAKWDVAPVETYSVPS  405 (967)
Q Consensus       388 R~~~~~d~~P~~~~sv~~  405 (967)
                      .-...|++||.+++-+.+
T Consensus       114 iI~~yv~VPp~gf~~~y~  131 (182)
T PF06495_consen  114 IITKYVDVPPPGFEYAYG  131 (182)
T ss_pred             eeeeeccCCCcccccccC
Confidence            346889999999976554

The transformer locus (tra) produces an RNA processing protein that alternatively splices the doublesex pre-mRNA in the sex determination hierarchy of Drosophila melanogaster [].; GO: 0006397 mRNA processing, 0046660 female sex differentiation, 0005634 nucleus

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.21  E-value=0.00036  Score=74.84  Aligned_cols=79  Identities=11%  Similarity=0.232  Sum_probs=71.1

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....+||+|+...+|.+++...|+.||.|.-+.|..|..  ..+||+||+|.+.+.+..|+. |+|-.|.|+.|.|.+..
T Consensus       100 d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r  178 (231)
T KOG4209|consen  100 DAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKR  178 (231)
T ss_pred             CCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeee
Confidence            467899999999999999999999999999888888754  469999999999999999998 99999999999998875


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      -+
T Consensus       179 ~~  180 (231)
T KOG4209|consen  179 TN  180 (231)
T ss_pred             ee
Confidence            44

>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

Probab=97.20  E-value=0.0015  Score=57.98  Aligned_cols=69  Identities=22%  Similarity=0.265  Sum_probs=45.4

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      .|||.|||.+.+...|+.-+.+.-..+|-       .|+.+    +.+.|+|.|.+++.|..|+. |+|..+.|..|.|.
T Consensus         4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGG-------kVl~v----~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~   72 (90)
T PF11608_consen    4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGG-------KVLSV----SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS   72 (90)
T ss_dssp             EEEEES--TTS-HHHHHHHHHHHHHTTT---------EEE------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHhhccCC-------EEEEE----eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence            69999999998887766555543332321       34444    46899999999999999999 99999999999998


Q ss_pred             C
Q 002093          544 R  544 (967)
Q Consensus       544 r  544 (967)
                      .
T Consensus        73 ~   73 (90)
T PF11608_consen   73 F   73 (90)
T ss_dssp             S
T ss_pred             E
Confidence            5

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=97.08  E-value=7.9e-05  Score=82.75  Aligned_cols=152  Identities=15%  Similarity=0.232  Sum_probs=111.3

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcC--CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCC-CccCCeEEEEEEccc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG-LKVGGQVLTAVQAVL  651 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G--~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG-~~~~Gr~I~V~~a~~  651 (967)
                      ++||++||.+.++..+|..+|...-  .-..+.+      ..||+||.+.+...|.+|++.|+| ..+.|+.+.|.+..+
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~   75 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP   75 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence            4789999999999999999997641  1111222      379999999999999999999999 568999999887765


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCc
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNI  731 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~  731 (967)
                      ....                       ++-+.|.|+..  .|   -    -   +-+-.+...||.|++|..+.....  
T Consensus        76 kkqr-----------------------srk~Qirnipp--ql---~----w---evld~Ll~qyg~ve~~eqvnt~~e--  118 (584)
T KOG2193|consen   76 KKQR-----------------------SRKIQIRNIPP--QL---Q----W---EVLDSLLAQYGTVENCEQVNTDSE--  118 (584)
T ss_pred             HHHH-----------------------hhhhhHhcCCH--HH---H----H---HHHHHHHhccCCHhHhhhhccchH--
Confidence            4331                       33466666643  11   1    1   224556789999999987543211  


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          732 STIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       732 ~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ....-|+|...+.++.||..|||..|..-.++++...+
T Consensus       119 tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPd  156 (584)
T KOG2193|consen  119 TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPD  156 (584)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCch
Confidence            11123899999999999999999999988888766554

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=97.05  E-value=0.0014  Score=75.62  Aligned_cols=77  Identities=6%  Similarity=0.014  Sum_probs=64.8

Q ss_pred             CCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCcc
Q 002093          678 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDET  757 (967)
Q Consensus       678 ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~  757 (967)
                      -..|++|.|+..      +.+.-++.+.--|..+|++||+|.++.+|-++.|.++||.|++|++..+|+.|++.|||..|
T Consensus        57 ~D~vVvv~g~Pv------V~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~l  130 (698)
T KOG2314|consen   57 FDSVVVVDGAPV------VGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRL  130 (698)
T ss_pred             cceEEEECCCcc------cChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhccccee
Confidence            356777777754      34455667777789999999999999999998888999999999999999999999999988


Q ss_pred             CCC
Q 002093          758 NEK  760 (967)
Q Consensus       758 ~~r  760 (967)
                      .-.
T Consensus       131 dkn  133 (698)
T KOG2314|consen  131 DKN  133 (698)
T ss_pred             ccc
Confidence            543

>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

Probab=96.72  E-value=0.0041  Score=55.35  Aligned_cols=69  Identities=10%  Similarity=0.173  Sum_probs=47.7

Q ss_pred             ceEEEcCCCcccCHH----HHHHHHHhcCC-eeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSK----MVMEIVCAFGP-LKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~tee----dL~e~Fsk~G~-V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ..|+|.|||...+..    -|+.++..+|. |..|        +.+.|+|.|.+.+.|.+|++.|+|-.+.|..|.|++.
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--------eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            468999999887765    46677778764 5444        3689999999999999999999999999999999987


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        75 ~~   76 (90)
T PF11608_consen   75 PK   76 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            43

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=96.49  E-value=0.0035  Score=69.48  Aligned_cols=84  Identities=19%  Similarity=0.153  Sum_probs=66.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccc--cCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHV--HGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v--~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ...-+|||-+||..+++.+|.++|.+++.+.--...  +.+.+-.+..|+..||-|.|.|.++..|+.|+. +++..|.|
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g  143 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG  143 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence            345589999999999999999999998853321111  111222455778999999999999999999999 99999999


Q ss_pred             ceeEEeC
Q 002093          538 SILKIKR  544 (967)
Q Consensus       538 r~l~V~r  544 (967)
                      .+|+|..
T Consensus       144 n~ikvs~  150 (351)
T KOG1995|consen  144 NTIKVSL  150 (351)
T ss_pred             CCchhhh
Confidence            9998863

>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

Probab=96.29  E-value=0.0056  Score=57.74  Aligned_cols=57  Identities=16%  Similarity=0.289  Sum_probs=38.1

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  635 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln  635 (967)
                      ..|+|.+++..++.++|++.|+.||.|..|.+..    +...|||.|.+.+.|..|+..+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~----G~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSR----GDTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--T----T-SEEEEEESS---HHHHHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecC----CCCEEEEEECCcchHHHHHHHHH
Confidence            3578888999999999999999999999888754    35699999999999999998775

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.14  E-value=0.011  Score=64.53  Aligned_cols=77  Identities=19%  Similarity=0.349  Sum_probs=63.0

Q ss_pred             CCceEEEcCCCcccCHHHH------HHHHHhcCCeeEEEEeecCC---CCCC--EEEEeecCcchHHHHHHHhCCCccCC
Q 002093          573 SPHKIFIGGISRTLSSKMV------MEIVCAFGPLKAYHFEVNED---HEEP--CAFIEYVDQLVTPKAIAGLNGLKVGG  641 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL------~e~Fsk~G~V~~v~l~~d~~---~skG--~aFVeF~~~e~A~~Al~~LnG~~~~G  641 (967)
                      ..+-+||-+|++.+-.+++      .++|.+||.|..|.|.+...   +..+  -+||.|.+.++|..||+..+|..++|
T Consensus       113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG  192 (480)
T COG5175         113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG  192 (480)
T ss_pred             ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence            4567899999988776662      48999999999988865431   1133  35999999999999999999999999


Q ss_pred             eEEEEEEc
Q 002093          642 QVLTAVQA  649 (967)
Q Consensus       642 r~I~V~~a  649 (967)
                      +.|++.|.
T Consensus       193 r~lkatYG  200 (480)
T COG5175         193 RVLKATYG  200 (480)
T ss_pred             ceEeeecC
Confidence            99999875

>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]

Probab=95.79  E-value=0.011  Score=68.48  Aligned_cols=8  Identities=50%  Similarity=0.646  Sum_probs=3.4

Q ss_pred             CCCccccc
Q 002093          182 PNVKSEKL  189 (967)
Q Consensus       182 ~~~~~~~~  189 (967)
                      +.|++|++
T Consensus       549 p~p~sErl  556 (757)
T KOG4368|consen  549 PMPPSERL  556 (757)
T ss_pred             CCChHHHH
Confidence            34444443

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=95.71  E-value=0.008  Score=66.73  Aligned_cols=80  Identities=16%  Similarity=0.208  Sum_probs=68.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE--------EEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--------v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      ...+|||.+||..+++.+|.++|.++|.|..        |.|-+++.  ..||-|.|.|.+...|..|+.-+++..|.|.
T Consensus        65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn  144 (351)
T KOG1995|consen   65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGN  144 (351)
T ss_pred             ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCC
Confidence            3568999999999999999999999998743        44445543  4599999999999999999999999999999


Q ss_pred             EEEEEEcccC
Q 002093          643 VLTAVQAVLD  652 (967)
Q Consensus       643 ~I~V~~a~~~  652 (967)
                      +|+|..|...
T Consensus       145 ~ikvs~a~~r  154 (351)
T KOG1995|consen  145 TIKVSLAERR  154 (351)
T ss_pred             Cchhhhhhhc
Confidence            9999887543

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=95.47  E-value=0.038  Score=58.80  Aligned_cols=96  Identities=13%  Similarity=0.070  Sum_probs=75.5

Q ss_pred             hHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHH
Q 002093          626 VTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVL  705 (967)
Q Consensus       626 ~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~  705 (967)
                      -|..|-..|+|....|+.|.|.|+..                            ..|+|.|+..-...            
T Consensus         6 ~ae~ak~eLd~~~~~~~~lr~rfa~~----------------------------a~l~V~nl~~~~sn------------   45 (275)
T KOG0115|consen    6 LAEIAKRELDGRFPKGRSLRVRFAMH----------------------------AELYVVNLMQGASN------------   45 (275)
T ss_pred             HHHHHHHhcCCCCCCCCceEEEeecc----------------------------ceEEEEecchhhhh------------
Confidence            45667778999999999999999943                            34666666432221            


Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc
Q 002093          706 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKG  761 (967)
Q Consensus       706 eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~  761 (967)
                      +-+.+.|..||.|+..++..|..+...+-++|.|...-.|.+|....+-.-|++.+
T Consensus        46 dll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~  101 (275)
T KOG0115|consen   46 DLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTT  101 (275)
T ss_pred             HHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCC
Confidence            23678899999999999999988888899999999999999999988655555443

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=95.39  E-value=0.028  Score=65.40  Aligned_cols=74  Identities=16%  Similarity=0.303  Sum_probs=58.6

Q ss_pred             CceEEEcCCCcccCH------HHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCC-eEEE
Q 002093          574 PHKIFIGGISRTLSS------KMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-QVLT  645 (967)
Q Consensus       574 ~~~L~V~nLp~~~te------edL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G-r~I~  645 (967)
                      .+.|+|-|+|..-..      .-|..+|+++|+|..+.++.+. +.++||.|++|.+..+|..|++.|||..|.- ..+.
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~  137 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF  137 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence            467888898854322      3467899999999999887664 4579999999999999999999999988854 4455


Q ss_pred             EE
Q 002093          646 AV  647 (967)
Q Consensus       646 V~  647 (967)
                      |.
T Consensus       138 v~  139 (698)
T KOG2314|consen  138 VR  139 (698)
T ss_pred             ee
Confidence            54

>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

Probab=95.33  E-value=0.037  Score=52.21  Aligned_cols=68  Identities=21%  Similarity=0.207  Sum_probs=39.8

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc-----Cceeec
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD-----GCSFSG  537 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln-----g~~l~G  537 (967)
                      .-|+|.+++..++-++|+++|+.||            .|..+.....-..|||-|.+++.|..|+. +.     +..+.+
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g------------~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~   69 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFG------------EVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKG   69 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--------------EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTS
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcC------------CcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcC
Confidence            3589999999999999999999998            33445555556689999999999999998 33     234455


Q ss_pred             ceeEEe
Q 002093          538 SILKIK  543 (967)
Q Consensus       538 r~l~V~  543 (967)
                      ..+.+.
T Consensus        70 ~~~~~~   75 (105)
T PF08777_consen   70 KEVTLE   75 (105)
T ss_dssp             SSEEEE
T ss_pred             ceEEEE
Confidence            444443

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=95.27  E-value=0.063  Score=50.11  Aligned_cols=75  Identities=16%  Similarity=0.200  Sum_probs=52.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEE-Eeec-------C-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeE-
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYH-FEVN-------E-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-  643 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~-l~~d-------~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~-  643 (967)
                      ..-|.|-+.|+.. ...|.+.|++||.|.... +.++       + .....+..|.|.++.+|.+||. -||..|+|.. 
T Consensus         6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~m   83 (100)
T PF05172_consen    6 ETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLM   83 (100)
T ss_dssp             CCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEE
T ss_pred             CeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEE
Confidence            4568899999884 467888999999987653 1111       1 1246799999999999999996 8999998864 


Q ss_pred             EEEEEcc
Q 002093          644 LTAVQAV  650 (967)
Q Consensus       644 I~V~~a~  650 (967)
                      |-|.++.
T Consensus        84 vGV~~~~   90 (100)
T PF05172_consen   84 VGVKPCD   90 (100)
T ss_dssp             EEEEE-H
T ss_pred             EEEEEcH
Confidence            5576663

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=95.21  E-value=0.026  Score=61.90  Aligned_cols=78  Identities=12%  Similarity=0.029  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..-.+|||||-.++|.+||.+.+...|    +..+....-+.+...|.+||||+|...+.....+-|+ |....|.|+.-
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G----~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P  154 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTG----LAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSP  154 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhh----HHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCC
Confidence            344689999999999999999998877    4444332233455669999999999999999999999 88899999876


Q ss_pred             EEe
Q 002093          541 KIK  543 (967)
Q Consensus       541 ~V~  543 (967)
                      .|-
T Consensus       155 ~V~  157 (498)
T KOG4849|consen  155 TVL  157 (498)
T ss_pred             eee
Confidence            664

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=95.16  E-value=0.057  Score=44.40  Aligned_cols=52  Identities=19%  Similarity=0.366  Sum_probs=42.0

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHH
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAAL  528 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al  528 (967)
                      +.|-|.+.+++..+.-| ..|.+||            .|.+........++||.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~~~vl-~~F~~fG------------eI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVL-EHFASFG------------EIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHHH-HHHHhcC------------CEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            47889999988876544 5888899            4456666667889999999999999996

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=95.02  E-value=0.024  Score=67.35  Aligned_cols=67  Identities=16%  Similarity=0.089  Sum_probs=54.0

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.-++||+||-..+..+-++.++..+|.+..            +..   -.|||++|..+.-+..|+. ++.+.+.|+.+
T Consensus        39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s------------~kr---~~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl  103 (668)
T KOG2253|consen   39 PRDTVFVGNISYLVSQEFWKSILAKSGFVPS------------WKR---DKFGFCEFLKHIGDLRASRLLTELNIDDQKL  103 (668)
T ss_pred             CCceeEecchhhhhhHHHHHHHHhhCCcchh------------hhh---hhhcccchhhHHHHHHHHHHhcccCCCcchh
Confidence            3458999999999999999999998883222            111   1199999999999999999 88888889888


Q ss_pred             EEe
Q 002093          541 KIK  543 (967)
Q Consensus       541 ~V~  543 (967)
                      .+.
T Consensus       104 ~~~  106 (668)
T KOG2253|consen  104 IEN  106 (668)
T ss_pred             hcc
Confidence            765

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=94.36  E-value=0.073  Score=43.80  Aligned_cols=52  Identities=19%  Similarity=0.312  Sum_probs=42.2

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHH
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAI  631 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al  631 (967)
                      +.|.|.|.++... +.|...|..||.|.++.+..    ...+.||.|.+..+|.+||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~----~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPE----STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCC----CCcEEEEEECCHHHHHhhC
Confidence            4577888887765 45666888999999998852    4679999999999999985

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=94.36  E-value=0.17  Score=47.32  Aligned_cols=78  Identities=19%  Similarity=0.147  Sum_probs=48.8

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCC-cCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGS-LPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~-~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ...|.|-+.|+. .-..|...|+.||.+.....+... .-+.........+...|.|.++.+|.+||..||..|.|.-|.
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv   84 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV   84 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence            456889999998 455788899999964332111000 000000223456789999999999999999999999987654

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG1847 consensus mRNA splicing factor [RNA processing and modification]

Probab=94.35  E-value=0.049  Score=64.06  Aligned_cols=36  Identities=22%  Similarity=0.244  Sum_probs=15.7

Q ss_pred             cccccccccccc-ccccCcccccccc--chhhhhhhhhh
Q 002093           99 VGSGKKEDNALT-KNVDSSRQRDGEN--RDLETKLKEDY  134 (967)
Q Consensus        99 ~~~~~~~~~~~~-~~~~~~~~~~~~~--~~~~~~~~~~~  134 (967)
                      ++|.++-..+.. -+-.--+|++.-+  ..++.||-.|.
T Consensus       606 ~Is~~~p~~t~~~l~ak~akq~d~~~~a~va~eKLaqe~  644 (878)
T KOG1847|consen  606 SISVEPPDSTISGLGAKAAKQRDSSSIAYVAEEKLAQEG  644 (878)
T ss_pred             cccccCCCCCccccChHHHhhhhhhHHHHHHHHHHHhhh
Confidence            445555544442 2222233333221  24566666554

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=94.10  E-value=0.016  Score=61.61  Aligned_cols=79  Identities=14%  Similarity=0.053  Sum_probs=55.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeee--eeecCCCc--E--EEEEEcCHHHHHHHHH-ccCce
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIG--CVIQREKG--Q--AFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~--~~~~~skG--~--aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      ..--||+++||+.+...-|+++|+.||.+.-|..-+...-...  ...+...+  |  |.|+|.+-..|..+.. ||+..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~  152 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP  152 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence            3457999999999999999999999997554432221100000  01122222  2  8899999999999888 99999


Q ss_pred             eeccee
Q 002093          535 FSGSIL  540 (967)
Q Consensus       535 l~Gr~l  540 (967)
                      |+|+.-
T Consensus       153 Iggkk~  158 (278)
T KOG3152|consen  153 IGGKKK  158 (278)
T ss_pred             cCCCCC
Confidence            998753

>KOG1847 consensus mRNA splicing factor [RNA processing and modification]

Probab=93.89  E-value=0.049  Score=64.08  Aligned_cols=9  Identities=44%  Similarity=0.752  Sum_probs=3.6

Q ss_pred             CCcCCCCCc
Q 002093          286 RRRSRSRER  294 (967)
Q Consensus       286 rrRSRSRdr  294 (967)
                      |.|++|||+
T Consensus       780 r~R~sSrd~  788 (878)
T KOG1847|consen  780 RHRDSSRDE  788 (878)
T ss_pred             cccccccCc
Confidence            334444433

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=93.88  E-value=0.13  Score=54.86  Aligned_cols=85  Identities=15%  Similarity=0.202  Sum_probs=69.4

Q ss_pred             HHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCee
Q 002093          524 ASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLK  602 (967)
Q Consensus       524 A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~  602 (967)
                      |..|-. |++....|+.|+|..+                           ....|+|.||...++.+.|...|+.||+|.
T Consensus         7 ae~ak~eLd~~~~~~~~lr~rfa---------------------------~~a~l~V~nl~~~~sndll~~~f~~fg~~e   59 (275)
T KOG0115|consen    7 AEIAKRELDGRFPKGRSLRVRFA---------------------------MHAELYVVNLMQGASNDLLEQAFRRFGPIE   59 (275)
T ss_pred             HHHHHHhcCCCCCCCCceEEEee---------------------------ccceEEEEecchhhhhHHHHHhhhhcCccc
Confidence            556666 8999999999999831                           114699999999999999999999999997


Q ss_pred             EE-EEeecCCCCCCEEEEeecCcchHHHHHHHhC
Q 002093          603 AY-HFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  635 (967)
Q Consensus       603 ~v-~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln  635 (967)
                      .. .++.+.+...+-++|+|...-.|.+|+..+.
T Consensus        60 ~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   60 RAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             hheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence            64 4444455668899999999999999988763

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=93.82  E-value=0.038  Score=58.76  Aligned_cols=70  Identities=16%  Similarity=0.358  Sum_probs=59.6

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC----------CC----CEEEEeecCcchHHHHHHHhCCCcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH----------EE----PCAFIEYVDQLVTPKAIAGLNGLKV  639 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~----------sk----G~aFVeF~~~e~A~~Al~~LnG~~~  639 (967)
                      ...||+++||+.+.-.-|+++|+.||.|-.|+|......          +.    --|+|+|.+...|......|||..|
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I  153 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI  153 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence            468999999999999999999999999999998665322          11    2578999999999999999999999


Q ss_pred             CCeE
Q 002093          640 GGQV  643 (967)
Q Consensus       640 ~Gr~  643 (967)
                      +|+.
T Consensus       154 ggkk  157 (278)
T KOG3152|consen  154 GGKK  157 (278)
T ss_pred             CCCC
Confidence            8875

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.76  E-value=0.095  Score=57.45  Aligned_cols=59  Identities=12%  Similarity=-0.015  Sum_probs=46.8

Q ss_pred             HHHHhcCCCeEEEEEecCCCCC---cc-eeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          709 RLECARFGSVKSVNVVKYGDSN---IS-TIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       709 r~~f~kFG~V~~V~I~r~~~g~---~~-G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      .++|..||+|..|.|.+.....   .. .-.||+|.+.++|..||.++.|..+.|+.++-...
T Consensus       138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYG  200 (480)
T COG5175         138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYG  200 (480)
T ss_pred             hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecC
Confidence            4679999999999998753111   11 12599999999999999999999999999985443

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=93.45  E-value=0.071  Score=60.42  Aligned_cols=64  Identities=20%  Similarity=0.270  Sum_probs=54.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec---CCC------------CCCEEEEeecCcchHHHHHHHhCC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---EDH------------EEPCAFIEYVDQLVTPKAIAGLNG  636 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d---~~~------------skG~aFVeF~~~e~A~~Al~~LnG  636 (967)
                      ...+|.+-|||..-.-+-|.++|..+|.|..|+|...   ...            .+-+|+|+|...+.|.+|.+.|+.
T Consensus       230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            4688999999999888999999999999999999765   111            144899999999999999997754

>KOG3263 consensus Nucleic acid binding protein [General function prediction only]

Probab=93.22  E-value=0.048  Score=54.37  Aligned_cols=9  Identities=89%  Similarity=1.158  Sum_probs=3.5

Q ss_pred             CCcCCCCCc
Q 002093          286 RRRSRSRER  294 (967)
Q Consensus       286 rrRSRSRdr  294 (967)
                      +.|||++++
T Consensus        64 rsRsR~reR   72 (196)
T KOG3263|consen   64 RSRSRSRER   72 (196)
T ss_pred             ccccccccc
Confidence            334443333

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=92.95  E-value=0.082  Score=62.00  Aligned_cols=75  Identities=11%  Similarity=0.197  Sum_probs=60.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhc-CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc---CCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAF-GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~-G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~---~Gr~I~V~~  648 (967)
                      ..+.|+|.||-.-+|.-+|++++..- |.|..+.|  |+  -+..|||.|.+.++|.+.+.+|||..+   +++.|.|.|
T Consensus       443 ~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--Dk--IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf  518 (718)
T KOG2416|consen  443 PSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--DK--IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADF  518 (718)
T ss_pred             ccceEeeecccccchHHHHHHHHhhccCchHHHHH--HH--hhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeee
Confidence            45889999999999999999999965 55555533  21  377899999999999999999999765   677788877


Q ss_pred             ccc
Q 002093          649 AVL  651 (967)
Q Consensus       649 a~~  651 (967)
                      ...
T Consensus       519 ~~~  521 (718)
T KOG2416|consen  519 VRA  521 (718)
T ss_pred             cch
Confidence            643

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=92.92  E-value=0.082  Score=58.17  Aligned_cols=75  Identities=12%  Similarity=0.146  Sum_probs=62.3

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCC--eeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGP--LKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~--V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|||||-+.+|++||.+.+...|.  +.+++++.+  .+.++|||+|...+...+.+.++.|--..|.|+.-+|..+
T Consensus        81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~  159 (498)
T KOG4849|consen   81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY  159 (498)
T ss_pred             EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence            57999999999999999999988774  455666555  3457999999999999999999999988998887776544

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=92.85  E-value=0.31  Score=48.37  Aligned_cols=56  Identities=18%  Similarity=0.345  Sum_probs=45.2

Q ss_pred             HHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          590 MVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       590 dL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +|.+.|..||.+.-|+++.      +.-+|.|.+-.+|.+|+. |+|..++|+.|.|+.-.|+
T Consensus        52 ~ll~~~~~~GevvLvRfv~------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd  107 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVG------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD  107 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEET------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred             HHHHHHHhCCceEEEEEeC------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence            6788889999888777753      578999999999999996 9999999999999887654

; PDB: 1UFW_A 2DNR_A.

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=92.64  E-value=0.23  Score=58.49  Aligned_cols=73  Identities=18%  Similarity=0.180  Sum_probs=59.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee---
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF---  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l---  535 (967)
                      ...++.|||.||---+|.-+|++|+..-|.           .|...++.+-|..|||.|.+.++|-.-.. |+|..+   
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg-----------~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~s  509 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGG-----------NVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPS  509 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccC-----------chHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCC
Confidence            456789999999999999999999975442           44566888889999999999999999998 999776   


Q ss_pred             ecceeEEe
Q 002093          536 SGSILKIK  543 (967)
Q Consensus       536 ~Gr~l~V~  543 (967)
                      +++.|.+.
T Consensus       510 NPK~L~ad  517 (718)
T KOG2416|consen  510 NPKHLIAD  517 (718)
T ss_pred             CCceeEee
Confidence            34555543

>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]

Probab=92.39  E-value=0.32  Score=56.99  Aligned_cols=11  Identities=18%  Similarity=0.401  Sum_probs=6.4

Q ss_pred             HHHHHHhcCCe
Q 002093          591 VMEIVCAFGPL  601 (967)
Q Consensus       591 L~e~Fsk~G~V  601 (967)
                      |++++.+||.-
T Consensus       520 LRevLKKyG~n  530 (752)
T KOG0670|consen  520 LREVLKKYGRN  530 (752)
T ss_pred             HHHHHHHhCcc
Confidence            55666666643

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=90.80  E-value=0.15  Score=57.85  Aligned_cols=83  Identities=23%  Similarity=0.125  Sum_probs=57.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCC-------CcEEEEEEcCHHHHHHHHH-ccC
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE-------KGQAFVEFLTAEDASAALC-CDG  532 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~s-------kG~aFVeF~~~e~A~~Al~-lng  532 (967)
                      -+.++|.+-|||.+-.-+.|.++|..||.+..|.....+.+-.++.....       +-+|||+|...+.|.+|.+ ||.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            46899999999999888999999999998666554443211122222222       3459999999999999999 544


Q ss_pred             ceeecceeEEe
Q 002093          533 CSFSGSILKIK  543 (967)
Q Consensus       533 ~~l~Gr~l~V~  543 (967)
                      ..-+-.-|+|.
T Consensus       309 e~~wr~glkvk  319 (484)
T KOG1855|consen  309 EQNWRMGLKVK  319 (484)
T ss_pred             hhhhhhcchhh
Confidence            44433334443

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=89.90  E-value=1.5  Score=43.62  Aligned_cols=60  Identities=13%  Similarity=0.194  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          702 EEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       702 eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +.+..+|-+.|..||+|.-|.+.-       +--+|+|.+-+.|.+| ..|+|.+++|+.+++...+.
T Consensus        47 d~l~~~ll~~~~~~GevvLvRfv~-------~~mwVTF~dg~sALaa-ls~dg~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   47 DNLMDELLQKFAQYGEVVLVRFVG-------DTMWVTFRDGQSALAA-LSLDGIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             HHHHHHHHHHHHCCS-ECEEEEET-------TCEEEEESSCHHHHHH-HHGCCSEETTEEEEEEE---
T ss_pred             HHHHHHHHHHHHhCCceEEEEEeC-------CeEEEEECccHHHHHH-HccCCcEECCEEEEEEeCCc
Confidence            456678888999999988776654       2357999999999877 46899999999999987654

; PDB: 1UFW_A 2DNR_A.

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=89.49  E-value=1.1  Score=40.18  Aligned_cols=56  Identities=11%  Similarity=0.256  Sum_probs=43.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  635 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln  635 (967)
                      ..+..+|. +|..+...||.++|+.||.|. |.++.|     .-|||.+.+.+.|..|+..+.
T Consensus         8 RdHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-----TSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen    8 RDHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-----TSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             GCCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-----TEEEEEECCCHHHHHHHHHHT
T ss_pred             cceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-----CcEEEEeecHHHHHHHHHHhc
Confidence            34666676 999999999999999999984 555544     579999999999999998775

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=88.97  E-value=1.4  Score=37.53  Aligned_cols=54  Identities=17%  Similarity=0.341  Sum_probs=44.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhc----CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAF----GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL  634 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~----G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L  634 (967)
                      +.+|+|.|+.. ++.++|+.+|..|    + ...|.++.|.     -|-|.|.+.+.|.+||.+|
T Consensus         5 peavhirGvd~-lsT~dI~~y~~~y~~~~~-~~~IEWIdDt-----ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEG-PFRIEWIDDT-----SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eceEEEEcCCC-CCHHHHHHHHHHhcccCC-CceEEEecCC-----cEEEEECCHHHHHHHHHcC
Confidence            57899999864 7788999999999    4 3468887763     4778999999999999765

>PF08648 DUF1777: Protein of unknown function (DUF1777); InterPro: IPR013957 This entry shows eukaryotic proteins of unknown function

Probab=88.66  E-value=0.68  Score=47.97  Aligned_cols=8  Identities=13%  Similarity=0.484  Sum_probs=3.5

Q ss_pred             HHHHHHHH
Q 002093          479 ALMEFLNN  486 (967)
Q Consensus       479 dL~~~F~~  486 (967)
                      +.+++++-
T Consensus       161 ~yRQYMNR  168 (180)
T PF08648_consen  161 KYRQYMNR  168 (180)
T ss_pred             HHHHHHhh
Confidence            34444443

Some of the proteins are putative nucleic acid binding proteins.

>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]

Probab=85.90  E-value=0.44  Score=55.35  Aligned_cols=19  Identities=11%  Similarity=-0.104  Sum_probs=9.1

Q ss_pred             eCCCCcchHHHHHHHHHHh
Q 002093          469 ENLPLSASEKALMEFLNNF  487 (967)
Q Consensus       469 gNLp~~~TeedL~~~F~~f  487 (967)
                      ||--+..|...+...|-+|
T Consensus       555 G~~r~klt~~~~lk~rmq~  573 (653)
T KOG2548|consen  555 GNSRPKLTFFECLKSRMQF  573 (653)
T ss_pred             CCCCCcccHHHHHHHHHHH
Confidence            4444555554444444443

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=85.65  E-value=3.1  Score=39.64  Aligned_cols=66  Identities=11%  Similarity=0.091  Sum_probs=51.2

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcC-CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  640 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G-~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~  640 (967)
                      ..+.+...|..++.++|..+.+.+- .|.+++|+++...++-.+.++|.+...|..-...+||..|+
T Consensus        14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn   80 (110)
T PF07576_consen   14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFN   80 (110)
T ss_pred             eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence            3444555556666677776666654 56789999997667889999999999999999999998875

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]

Probab=85.50  E-value=3  Score=49.32  Aligned_cols=15  Identities=13%  Similarity=0.304  Sum_probs=7.7

Q ss_pred             HHHHHhcCCCeEEEE
Q 002093          708 VRLECARFGSVKSVN  722 (967)
Q Consensus       708 Ir~~f~kFG~V~~V~  722 (967)
                      |++++.+||.-.-+.
T Consensus       520 LRevLKKyG~nvGL~  534 (752)
T KOG0670|consen  520 LREVLKKYGRNVGLH  534 (752)
T ss_pred             HHHHHHHhCccccee
Confidence            455556666443333

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=85.47  E-value=0.35  Score=49.97  Aligned_cols=76  Identities=17%  Similarity=0.164  Sum_probs=43.2

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHH-hhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNN-FLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~-fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ...+|.|++||+++||+++.+.+.+ ++.......+.+.  +-.... ...-..|||.|.+.+++..... ++|..|.+.
T Consensus         6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~--~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~   83 (176)
T PF03467_consen    6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGK--YGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDS   83 (176)
T ss_dssp             ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEE--ES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-T
T ss_pred             cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecC--CCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECC
Confidence            3458999999999999999886655 3321000111100  000001 1123459999999999999998 999888554


Q ss_pred             e
Q 002093          539 I  539 (967)
Q Consensus       539 ~  539 (967)
                      .
T Consensus        84 k   84 (176)
T PF03467_consen   84 K   84 (176)
T ss_dssp             T
T ss_pred             C
Confidence            3

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=83.04  E-value=3.5  Score=43.00  Aligned_cols=61  Identities=11%  Similarity=0.059  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC--CCccCCeEEEEEEcccC
Q 002093          588 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       588 eedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln--G~~~~Gr~I~V~~a~~~  652 (967)
                      ...|+++|..|+.+..+.+++    +-+=..|.|.+.+.|..|...|+  +..|.|..|+|.++.+.
T Consensus         9 ~~~l~~l~~~~~~~~~~~~L~----sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~   71 (184)
T PF04847_consen    9 LAELEELFSTYDPPVQFSPLK----SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT   71 (184)
T ss_dssp             HHHHHHHHHTT-SS-EEEEET----TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred             HHHHHHHHHhcCCceEEEEcC----CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence            468999999999998887765    46778999999999999999999  99999999999998543

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=82.12  E-value=3.8  Score=47.31  Aligned_cols=68  Identities=12%  Similarity=0.162  Sum_probs=60.9

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcC-CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG  641 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G-~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G  641 (967)
                      ...|+|-.+|..++..||..|+..+- .|.+|+|++|..+++=.+.|.|.+.++|..--+.+||..|+.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            67899999999999999999999865 578899999876778899999999999999999999988854

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=80.47  E-value=4.1  Score=40.22  Aligned_cols=70  Identities=17%  Similarity=0.282  Sum_probs=51.7

Q ss_pred             CceEEEcCCC----cccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGIS----RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp----~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      -.+|.|.=|.    +.-+...|...++.||+|.+|.+.     ++--|.|.|.+..+|.+|+.+++. ...|..+.+.|-
T Consensus        86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWq  159 (166)
T PF15023_consen   86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQ  159 (166)
T ss_pred             ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeecc
Confidence            3567776444    333344567778899999999763     477899999999999999998875 556666666553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	967
2yh0_A	198	Solution Structure Of The Closed Conformation Of Hu		1e-27
2g4b_A	172	Structure Of U2af65 Variant With Polyuridine Tract		9e-23
3vaf_A	174	Structure Of U2af65 Variant With Bru3 Dna Length =		1e-22
1u2f_A	90	Solution Structure Of The First Rna-Binding Domain		8e-10
2hzc_A	87	Crystal Structure Of The N-terminal Rrm Of The U2af		2e-09
2u2f_A	85	Solution Structure Of The Second Rna-Binding Domain		4e-09

>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human U2af65 Tandem Rrm1 And Rrm2 Domains Length = 198

Iteration: 1
 Score =  122 bits (305), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 70/188 (37%), Positives = 108/188 (57%), Gaps = 3/188 (1%)
Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 63
Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
            + A+  DG  F G  LKI+RP ++  +       SV     VS +V DS HK+FIGG+ 
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLP 123
Query: 584 RTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG 641
             L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIAGLNG+++G 
Sbjct: 124 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 183
Query: 642 QVLTAVQA 649
           + L   +A
Sbjct: 184 KKLLVQRA 191

>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract Length = 172

Iteration: 1
 Score =  105 bits (263), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 63/188 (33%), Positives = 100/188 (53%), Gaps = 23/188 (12%)
Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 63
Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
            + A+  DG  F G  LKI+RP ++  +                       HK+FIGG+ 
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA--------------------HKLFIGGLP 103
Query: 584 RTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG 641
             L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIAGLNG+++G 
Sbjct: 104 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 163
Query: 642 QVLTAVQA 649
           + L   +A
Sbjct: 164 KKLLVQRA 171

>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna Length = 174

Iteration: 1
 Score =  105 bits (263), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 63/188 (33%), Positives = 100/188 (53%), Gaps = 23/188 (12%)
Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 7   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 65
Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
            + A+  DG  F G  LKI+RP ++  +                       HK+FIGG+ 
Sbjct: 66  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA--------------------HKLFIGGLP 105
Query: 584 RTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG 641
             L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIAGLNG+++G 
Sbjct: 106 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 165
Query: 642 QVLTAVQA 649
           + L   +A
Sbjct: 166 KKLLVQRA 173

>pdb|1U2F|A Chain A, Solution Structure Of The First Rna-Binding Domain Of Hu2af65 Length = 90

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 30/85 (35%), Positives = 50/85 (58%), Gaps = 1/85 (1%)
Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 2   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 60
Query: 524 ASAALCCDGCSFSGSILKIKRPKEF 548
            + A+  DG  F G  LKI+RP ++
Sbjct: 61  TTQAMAFDGIIFQGQSLKIRRPHDY 85

>pdb|2HZC|A Chain A, Crystal Structure Of The N-terminal Rrm Of The U2af Large Subunit Length = 87

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/82 (36%), Positives = 48/82 (58%), Gaps = 1/82 (1%)
Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 7   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 65
Query: 524 ASAALCCDGCSFSGSILKIKRP 545
            + A+  DG  F G  LKI+RP
Sbjct: 66  TTQAMAFDGIIFQGQSLKIRRP 87

>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of Hu2af65 Length = 85

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 2/77 (2%)
Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIA 632
           HK+FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIA
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61
Query: 633 GLNGLKVGGQVLTAVQA 649
           GLNG+++G + L   +A
Sbjct: 62  GLNGMQLGDKKLLVQRA 78

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	967
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	8e-41
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-06
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-36
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	6e-04
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	3e-20
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-06
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-11
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-05
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	7e-11
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	4e-09
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	6e-08
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	5e-09
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	2e-08
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	1e-06
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	1e-07
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	9e-07
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	1e-07
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	2e-04
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	2e-07
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	2e-07
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	4e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	4e-07
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	5e-07
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	6e-07
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	9e-07
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	9e-07
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	1e-06
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	3e-04
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	2e-06
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-06
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	3e-06
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	3e-06
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	4e-06
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	6e-04
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	4e-06
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	6e-06
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	9e-05
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-06
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-05
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	7e-06
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	9e-06
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	9e-06
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	9e-06
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-05
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	4e-05
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-05
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-05
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	4e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	5e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	5e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	3e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	5e-05
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	5e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	5e-05
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	6e-05
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	6e-05
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	6e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	7e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	8e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	2e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	8e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	9e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-04
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	1e-04
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	1e-04
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	1e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	2e-04
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-04
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-04
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	2e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	3e-04
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	3e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	3e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	4e-04
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	4e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	5e-04
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	5e-04
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	5e-04
2dis_A	109	Unnamed protein product; structural genomics, RRM	6e-04
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	6e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	7e-04
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	7e-04
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	7e-04
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	8e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	8e-04
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	8e-04
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	9e-04

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score =  147 bits (374), Expect = 8e-41
 Identities = 69/186 (37%), Positives = 105/186 (56%), Gaps = 3/186 (1%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
             RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + 
Sbjct: 3   MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSV 61

Query: 522 EDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGG 581
           ++ + A+  DG  F G  LKI+RP ++  +       SV     VS +V DS HK+FIGG
Sbjct: 62  DETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGG 121

Query: 582 ISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKV 639
           +   L+   V E++ +FGPLKA++   +         AF EYVD  VT +AIAGLNG+++
Sbjct: 122 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQL 181

Query: 640 GGQVLT 645
           G + L 
Sbjct: 182 GDKKLL 187

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 30/168 (17%), Positives = 60/168 (35%), Gaps = 21/168 (12%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE-------VNEDHEEPCAFIEYVDQ 624
               ++++G I   ++ + +M+   A   L             V  + ++  AF+E+   
Sbjct: 2   AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSV 61

Query: 625 LVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKL 684
             T +A+A  +G+   GQ L            D    P     P   +P +         
Sbjct: 62  DETTQAMA-FDGIIFQGQSLKI------RRPHDYQPLPGMSENPSVYVPGVVSTVVPDSA 114

Query: 685 KNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS 732
             +F       L    + +  + V+     FG +K+ N+VK   + +S
Sbjct: 115 HKLF----IGGLPN-YLND--DQVKELLTSFGPLKAFNLVKDSATGLS 155

>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 Length = 172

 Score =  133 bits (336), Expect = 5e-36
 Identities = 63/188 (33%), Positives = 98/188 (52%), Gaps = 23/188 (12%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF + ++
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRSVDE 63

Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
            + A+  DG  F G  LKI+RP ++                          HK+FIGG+ 
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQP--------------------LPGAHKLFIGGLP 103

Query: 584 RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGG 641
             L+   V E++ +FGPLKA++   +         AF EYVD  VT +AIAGLNG+++G 
Sbjct: 104 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 163

Query: 642 QVLTAVQA 649
           + L   +A
Sbjct: 164 KKLLVQRA 171

>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 Length = 172

 Score = 40.7 bits (96), Expect = 6e-04
 Identities = 27/172 (15%), Positives = 56/172 (32%), Gaps = 49/172 (28%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC-----------AFIE 620
            S  ++++G I   ++ + +M+   A   L      + +    P            AF+E
Sbjct: 2   GSARRLYVGNIPFGITEEAMMDFFNAQMRLG----GLTQAPGNPVLAVQINQDKNFAFLE 57

Query: 621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTE 680
           +     T +A+A  +G+   GQ L                        +           
Sbjct: 58  FRSVDETTQAMA-FDGIIFQGQSLK----------------------IRRP----HDYQP 90

Query: 681 VLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS 732
           +     +F       L    + +  + V+     FG +K+ N+VK   + +S
Sbjct: 91  LPGAHKLF----IGGLPN-YLND--DQVKELLTSFGPLKAFNLVKDSATGLS 135

>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 Length = 87

 Score = 85.2 bits (211), Expect = 3e-20
 Identities = 30/85 (35%), Positives = 48/85 (56%), Gaps = 1/85 (1%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
              RRL V N+P   +E+A+M+F N  +   G+    G+ P +   I ++K  AF+EF +
Sbjct: 4   GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN-PVLAVQINQDKNFAFLEFRS 62

Query: 521 AEDASAALCCDGCSFSGSILKIKRP 545
            ++ + A+  DG  F G  LKI+RP
Sbjct: 63  VDETTQAMAFDGIIFQGQSLKIRRP 87

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

 Score = 69.5 bits (169), Expect = 4e-12
 Identities = 74/497 (14%), Positives = 144/497 (28%), Gaps = 163/497 (32%)

Query: 541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHK------IFIGGISRTLSSKMVMEI 594
                 +  +V   +  KS+ S + +  I+  S         +F      TL SK   E+
Sbjct: 28  AFVDNFDCKDVQ--DMPKSILSKEEIDHIIM-SKDAVSGTLRLFW-----TLLSKQ-EEM 78

Query: 595 VCAF--GPLKA-YHFEVNEDHEEP-------CAFIEYVDQLVTPKAIAGLNGLKVGGQVL 644
           V  F    L+  Y F ++    E          +IE  D+L                   
Sbjct: 79  VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL------------------- 119

Query: 645 TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVF---NPE---------G 692
                         + N  F    K+ +    +    LKL+       P          G
Sbjct: 120 -------------YNDNQVF---AKYNVS---RLQPYLKLRQALLELRPAKNVLIDGVLG 160

Query: 693 F--SSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQ 750
              + +      +V    +++C     +  +N+      N ++ +            +  
Sbjct: 161 SGKTWV----ALDVCLSYKVQCKMDFKIFWLNL-----KNCNSPETVLEMLQKLLYQIDP 211

Query: 751 NLTN---------DETNEKGERLEEVTDHKSIKNNELEILND--SKEVMEAGEVN----- 794
           N T+            +     L  +   K  +N  L +L +  + +   A  ++     
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-LLVLLNVQNAKAWNAFNLSCKILL 270

Query: 795 -----NVKDNRPASGT---------MG---DEPSQLCELDTDMAVEYQARDSTSEIVSQG 837
                 V D   A+ T         M    DE   L     D   +    D   E++   
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ----DLPREVL-TT 325

Query: 838 VPTQVN----TLKDSPCAHD-------DKVTCNIQ--LEHMSEENKSSAKEDLNL--EEV 882
            P +++    +++D     D       DK+T  I+  L  +         + L++     
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385

Query: 883 N----------GNSEAFTGAS--NEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMR 930
           +           +          N++  + S VE      + P +  I  P      Y+ 
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKL-HKYSLVE------KQPKESTISIPSI----YLE 434

Query: 931 AEASCMAAHSLHRRLFD 947
            +      ++LHR + D
Sbjct: 435 LKVKLENEYALHRSIVD 451

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

 Score = 49.5 bits (117), Expect = 5e-06
 Identities = 91/716 (12%), Positives = 192/716 (26%), Gaps = 231/716 (32%)

Query: 47  LSENIKEDAMDVSNIPGDCTIENVSDDHKSGRHHGHKKSPGVDVHTSEEYVKVGSGKKED 106
             +   ++         DC  ++V D  KS             + + EE   +   K   
Sbjct: 25  FEDAFVDNF--------DC--KDVQDMPKS-------------ILSKEEIDHIIMSKDAV 61

Query: 107 NALTKNVDS--SRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNR 164
           +   +   +  S+Q +   + +E  L+ +Y       + L S I+ + R P         
Sbjct: 62  SGTLRLFWTLLSKQEEMVQKFVEEVLRINY-------KFLMSPIKTEQRQPSMMTRMYIE 114

Query: 165 GSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHAD 224
             D +L  D   +  +K NV   +    + R     +         + ++++        
Sbjct: 115 QRD-RLYNDN--QVFAKYNVSRLQPY-LKLRQALLEL---------RPAKNVL---IDGV 158

Query: 225 K-SGEKSE------RESKRKHRNRDDEKNRDKSAAKKV---DLGKGHD----LKVSERKE 270
             SG K+          K + +              K+   +L   +     L++ ++  
Sbjct: 159 LGSG-KTWVALDVCLSYKVQCKMDF-----------KIFWLNLKNCNSPETVLEMLQKLL 206

Query: 271 KKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSY------YDREH-EGLP 323
            +  P     +      + R    +   RR L                   + +      
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK---SKPYENCLLVLLNVQNAKAWNAFN 263

Query: 324 SHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPIN 383
                + + R     D        LS     H          +P                
Sbjct: 264 LSCKILLTTRFKQVTDF-------LSAATTTHISLDHHSMTLTP---------------- 300

Query: 384 RSPEKKS--AKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVS 441
              E KS   K+         +P  V T+N                      P   +S+ 
Sbjct: 301 --DEVKSLLLKY--LDCRPQDLPREVLTTN----------------------PRR-LSII 333

Query: 442 ASLAKLNVSM----DSVQLTQSNRPMRRLCVENLPLSASEKALME----FLNNFLLSSGV 493
           A   +  ++       V   +    +    +  L   A  + + +    F  +  + + +
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTT-IIESSLNVLE-PAEYRKMFDRLSVFPPSAHIPTIL 391

Query: 494 QHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI----LKIKRPKEF 548
                 L     +I  +  ++ V  +  +    +L        + SI    L++K   E 
Sbjct: 392 ------L----SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE- 440

Query: 549 VEVASGEAEKSVASVDSVSGIVKDSPHKIFIG--GISRTLSSKMVMEIVCAFGPLK---- 602
                 E                   H+  +    I +T  S           P      
Sbjct: 441 -----NEYAL----------------HRSIVDHYNIPKTFDSD-------DLIPPYLDQY 472

Query: 603 -----AYHFEVNEDHEEPCAFIE-YVD-QLVTPKAIAGLNGLKVGGQVLTAVQAVLD--- 652
                 +H +  E  E    F   ++D + +  K       ++       A  ++L+   
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK-------IRHDSTAWNASGSILNTLQ 525

Query: 653 ------GSIMDNSGNPPFHG--------IPKHALPLLKKP-TEVLKLKNVFNPEGF 693
                   I DN   P +          +PK    L+    T++L++  +   +  
Sbjct: 526 QLKFYKPYICDND--PKYERLVNAILDFLPKIEENLICSKYTDLLRIA-LMAEDEA 578

>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: 3h2u_B 3h2v_E Length = 284

 Score = 64.6 bits (158), Expect = 2e-11
 Identities = 32/194 (16%), Positives = 67/194 (34%), Gaps = 42/194 (21%)

Query: 455 QLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQA 514
              +  R  R++ +  LP   + + + + L+++     +++         C + + KG A
Sbjct: 14  HTERQFRNRRKILIRGLPGDVTNQEVHDLLSDY----ELKY---------CFVDKYKGTA 60

Query: 515 FVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDS 573
           FV  L  E A AA+            L ++                              
Sbjct: 61  FVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTD------------------------- 95

Query: 574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAI 631
              + +  +  +L+ +   E+V  FG L+      +E   +     F EY+ +    +A 
Sbjct: 96  -ALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAK 154

Query: 632 AGLNGLKVGGQVLT 645
           + L G  +G + L 
Sbjct: 155 SDLLGKPLGPRTLY 168

>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: 3h2u_B 3h2v_E Length = 284

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 30/193 (15%), Positives = 56/193 (29%), Gaps = 38/193 (19%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE------KGQA 514
                LCV NLP S +++   E +  F          G      C +         KG  
Sbjct: 93  PTDALLCVANLPPSLTQQQFEELVRPF----------G--SLERCFLVYSERTGQSKGYG 140

Query: 515 FVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDS 573
           F E++  + A+ A     G       L +              +    +   +       
Sbjct: 141 FAEYMKKDSAARAKSDLLGKPLGPRTLYVHW-----------TDAGQLTPALLHS----- 184

Query: 574 PHKIFIGGISRTLS-SKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAI 631
              + +  +    +    +   + A            +D   +  A +EY    +  +A 
Sbjct: 185 -RCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQ 243

Query: 632 AGLNGLKVGGQVL 644
              +GL +GG  L
Sbjct: 244 QQADGLSLGGSHL 256

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 61.9 bits (151), Expect = 7e-11
 Identities = 42/203 (20%), Positives = 77/203 (37%), Gaps = 34/203 (16%)

Query: 453 SVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI----- 507
           + Q   +   M R+ V ++     E  + +    F          G  P     +     
Sbjct: 18  AAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPF----------G--PIKSIDMSWDSV 65

Query: 508 -QREKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDS 565
             + KG AFVE+   E A  AL   +     G  +K+ RP        G+A+  +  +  
Sbjct: 66  TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRP-----SNIGQAQPIIDQLAE 120

Query: 566 VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP----CAFIEY 621
            +     + ++I++  + + LS   +  +  AFG +K+    +  D          FIEY
Sbjct: 121 EA----RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSAT--LARDPTTGKHKGYGFIEY 174

Query: 622 VDQLVTPKAIAGLNGLKVGGQVL 644
                +  A++ +N   +GGQ L
Sbjct: 175 EKAQSSQDAVSSMNLFDLGGQYL 197

>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 Length = 114

 Score = 54.3 bits (131), Expect = 4e-09
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)

Query: 917 HIFEP---GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARF 965
           ++ +    G V+V+     A+  A ++LH R F  +++   Y+PL  Y   F
Sbjct: 48  YVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHNLF 99

>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 Length = 114

 Score = 51.2 bits (123), Expect = 6e-08
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 678 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 723
            T+  +L N+FNP+  +        E+ +DV  EC + G V  + V
Sbjct: 6   ATQCFQLSNMFNPQ--TEEEVGWDTEIKDDVIEECNKHGGVIHIYV 49

>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 Length = 175

 Score = 55.7 bits (135), Expect = 5e-09
 Identities = 26/193 (13%), Positives = 58/193 (30%), Gaps = 46/193 (23%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-----QREKGQAF 515
                L + NL  + S   L   ++                     +        +   +
Sbjct: 11  TTPFNLFIGNLNPNKSVAELKVAISEL----------F--AKNDLAVVDVRTGTNRKFGY 58

Query: 516 VEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPH 575
           V+F +AED   AL   G    G+ +K+++PK                          +  
Sbjct: 59  VDFESAEDLEKALELTGLKVFGNEIKLEKPKGRDSKKV------------------RAAR 100

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP----CAFIEYVDQLVTPKAI 631
            +    +S  ++   + E+            E+    ++      A+IE+  +    K +
Sbjct: 101 TLLAKNLSFNITEDELKEVFEDAL-------EIRLVSQDGKSKGIAYIEFKSEADAEKNL 153

Query: 632 AGLNGLKVGGQVL 644
               G ++ G+ +
Sbjct: 154 EEKQGAEIDGRSV 166

>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 Length = 105

 Score = 52.1 bits (125), Expect = 2e-08
 Identities = 24/52 (46%), Positives = 34/52 (65%), Gaps = 2/52 (3%)

Query: 677 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD 728
            PTEVL L N+  PE    L + E EE++EDVR EC+++G VKS+ + +  D
Sbjct: 3   HPTEVLCLMNMVLPEEL--LDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVD 52

>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 Length = 105

 Score = 47.1 bits (112), Expect = 1e-06
 Identities = 13/43 (30%), Positives = 19/43 (44%)

Query: 922 GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 964
           G +FVE+        A   L  R F +R+V  +Y   + Y  R
Sbjct: 60  GKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR 102

>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} PDB: 3us5_A 2dny_A Length = 118

 Score = 50.5 bits (121), Expect = 1e-07
 Identities = 16/65 (24%), Positives = 36/65 (55%), Gaps = 9/65 (13%)

Query: 659 SGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSV 718
           SG+   H + +  L   K+ + V+ L+N+ +P+      +++ +++  +V  EC +FG+V
Sbjct: 2   SGSSARHMVMQKLLR--KQESTVMVLRNMVDPK------DID-DDLEGEVTEECGKFGAV 52

Query: 719 KSVNV 723
             V +
Sbjct: 53  NRVII 57

>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} PDB: 3us5_A 2dny_A Length = 118

 Score = 47.8 bits (114), Expect = 9e-07
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 3/56 (5%)

Query: 912 DPNQGHIFEP---GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 964
              QG   +      +FVE+  A  +  A  +L+ R F  R V  E      +   
Sbjct: 59  QEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNS 114

>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 Length = 112

 Score = 50.1 bits (120), Expect = 1e-07
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 669 KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 725
               P   +   V+ +KN+F+P  F     +   E+ ED+R+EC++FG ++ + +  
Sbjct: 5   SSGGPSRMRHERVVIIKNMFHPMDFEDDPLVL-NEIREDLRVECSKFGQIRKLLLFD 60

>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 Length = 112

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 7/36 (19%), Positives = 12/36 (33%)

Query: 920 EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEY 955
             G   V +   E +     +L  R F  R +  + 
Sbjct: 63  PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQA 98

>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} Length = 107

 Score = 49.5 bits (118), Expect = 2e-07
 Identities = 14/77 (18%), Positives = 32/77 (41%), Gaps = 4/77 (5%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
            + LP S + + ++ F ++  + +G   +H  L   G    + +G A +E  + +D   A
Sbjct: 16  AQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDG----KRRGDALIEMESEQDVQKA 71

Query: 528 LCCDGCSFSGSILKIKR 544
           L           +++  
Sbjct: 72  LEKHRMYMGQRYVEVYE 88

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 49.5 bits (118), Expect = 2e-07
 Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 4/77 (5%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           +  LP S S + +  FL++  +  GV  VH     I     R+ G+AFVE  + +D   A
Sbjct: 22  LRGLPWSCSIEDVQNFLSDCTIHDGVAGVH----FIYTREGRQSGEAFVELESEDDVKLA 77

Query: 528 LCCDGCSFSGSILKIKR 544
           L  D  S     +++ +
Sbjct: 78  LKKDRESMGHRYIEVFK 94

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 50.7 bits (122), Expect = 4e-07
 Identities = 38/187 (20%), Positives = 68/187 (36%), Gaps = 29/187 (15%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
           PM  L V +L    +E  L E    F  +  +  +     C   + +R  G A+V F   
Sbjct: 14  PMASLYVGDLHPDVTEAMLYEK---FSPAGPILSIR---VCRDMITRRSLGYAYVNFQQP 67

Query: 522 EDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIG 580
            DA  AL   +     G  ++I                  +  D    + K     IFI 
Sbjct: 68  ADAERALDTMNFDVIKGKPVRIMW----------------SQRD--PSLRKSGVGNIFIK 109

Query: 581 GISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLK 638
            + +++ +K + +   AFG + +    V  D        F+ +  Q    +AI  +NG+ 
Sbjct: 110 NLDKSIDNKALYDTFSAFGNILSCK--VVCDENGSKGYGFVHFETQEAAERAIEKMNGML 167

Query: 639 VGGQVLT 645
           +  + + 
Sbjct: 168 LNDRKVF 174

>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 Length = 126

 Score = 49.1 bits (117), Expect = 4e-07
 Identities = 16/95 (16%), Positives = 37/95 (38%), Gaps = 6/95 (6%)

Query: 450 SMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR 509
            M     +  +     + +  LP   +++ +++F       SG++ V   +        +
Sbjct: 29  QMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFF------SGLEIVPNGITLPVDPEGK 82

Query: 510 EKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR 544
             G+AFV+F + E A  AL           +++ +
Sbjct: 83  ITGEAFVQFASQELAEKALGKHKERIGHRYIEVFK 117

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 48.2 bits (115), Expect = 5e-07
 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 6/81 (7%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
             + +  LP   S++ +++F       SG++ V   +        R  G+AFV+F + E 
Sbjct: 16  GFVRLRGLPFGCSKEEIVQFF------SGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEI 69

Query: 524 ASAALCCDGCSFSGSILKIKR 544
           A  AL           ++I +
Sbjct: 70  AEKALKKHKERIGHRYIEIFK 90

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 47.8 bits (114), Expect = 6e-07
 Identities = 19/93 (20%), Positives = 35/93 (37%), Gaps = 10/93 (10%)

Query: 466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDAS 525
           + V  +P SA E  + +F +       V  VH     +G    R  G   V+FL+ +D  
Sbjct: 19  VSVHGMPFSAMENDVRDFFHGL----RVDAVHLLKDHVG----RNNGNGLVKFLSPQDTF 70

Query: 526 AALCCDGCSFSGSILKIKR--PKEFVEVASGEA 556
            AL  +        +++     +++V       
Sbjct: 71  EALKRNRMLMIQRYVEVSPATERQWVAAGGHIT 103

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 47.1 bits (112), Expect = 9e-07
 Identities = 21/102 (20%), Positives = 34/102 (33%), Gaps = 19/102 (18%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           +       + V NLP  A    L   L             GS+P      Q  + +AF+ 
Sbjct: 14  EGAPLAADVYVGNLPRDARVSDLKRALRE----------LGSVPLR-LTWQGPRRRAFLH 62

Query: 518 FLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEK 558
           +  +  A  A+ C  G       L+       V +A  + +K
Sbjct: 63  YPDSAAAQQAVSCLQGLRLGTDTLR-------VALARQQRDK 97

>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 Length = 114

 Score = 47.4 bits (113), Expect = 9e-07
 Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 8/88 (9%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFV 516
             N       + N+P S ++  +++FL    +  + V  +  +         +  GQA V
Sbjct: 10  DVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-------NGQGLGQALV 62

Query: 517 EFLTAEDASAALCCDGCSFSGSILKIKR 544
           +F   +DA  +        +G    +  
Sbjct: 63  QFKNEDDARKSERLHRKKLNGREAFVHV 90

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A Length = 105

 Score = 46.7 bits (111), Expect = 1e-06
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 7/53 (13%)

Query: 673 PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 725
            + K PT+V+ L+N+          E++ E++  + + EC ++G V    + +
Sbjct: 2   AMGKCPTKVVLLRNMVGAG------EVD-EDLEVETKEECEKYGKVGKCVIFE 47

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A Length = 105

 Score = 40.2 bits (94), Expect = 3e-04
 Identities = 13/53 (24%), Positives = 24/53 (45%)

Query: 912 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 964
           +       E   +F+E+ R E++  A   L+ R F  R+V   +  L+ +R  
Sbjct: 47  EIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVL 99

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 47.2 bits (112), Expect = 2e-06
 Identities = 20/95 (21%), Positives = 36/95 (37%), Gaps = 7/95 (7%)

Query: 468 VENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASA 526
           +  LP +A+ + ++ F      ++ G + +       G    R  G AFV F   E A  
Sbjct: 28  MRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDG----RPTGDAFVLFACEEYAQN 83

Query: 527 ALCCDGCSFSGSILKIKR--PKEFVEVASGEAEKS 559
           AL           +++ R    E  +V +  +  S
Sbjct: 84  ALRKHKDLLGKRYIELFRSTAAEVQQVLNRFSSAS 118

>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 Length = 136

 Score = 46.9 bits (111), Expect = 2e-06
 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 4/86 (4%)

Query: 459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEF 518
                  + +  LP S S + +  FL++  +  G   VH     I     R+ G+AFVE 
Sbjct: 40  EGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVH----FIYTREGRQSGEAFVEL 95

Query: 519 LTAEDASAALCCDGCSFSGSILKIKR 544
            + +D   AL  D  S     +++ +
Sbjct: 96  GSEDDVKMALKKDRESMGHRYIEVFK 121

>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 Length = 292

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 24/185 (12%), Positives = 57/185 (30%), Gaps = 45/185 (24%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ----AFVEFLTAED 523
           V+NLP S ++  + ++  +           G  P I   +     +    A +EF   + 
Sbjct: 46  VKNLPKSYNQNKVYKYFKHC----------G--PIIHVDVADSLKKNFRFARIEFARYDG 93

Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
           A AA+         + + +    E                             +++    
Sbjct: 94  ALAAITKTHKVVGQNEIIVSHLTE---------------------------CTLWMTNFP 126

Query: 584 RTLSSKMVMEIVCAFGPLK-AYHFEVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGG 641
            + + + + +++     +  +        +     A+I+   +      +  LNGLK+ G
Sbjct: 127 PSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEG 186

Query: 642 QVLTA 646
             L  
Sbjct: 187 YTLVT 191

>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 Length = 102

 Score = 45.9 bits (109), Expect = 3e-06
 Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 8/70 (11%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           +  LP  A+E  +  F +          VH           R  G+A VEF T EDA AA
Sbjct: 20  MRGLPYRATENDIYNFFSPL----NPMRVH----IEIGPDGRVTGEADVEFATHEDAVAA 71

Query: 528 LCCDGCSFSG 537
           +  D  +   
Sbjct: 72  MAKDKANMQH 81

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 45.4 bits (108), Expect = 3e-06
 Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 8/79 (10%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           +   P + +EK +MEFL           +       G     + G  FV+F   E+   A
Sbjct: 15  LRGAPFNVTEKNVMEFLAPL----KPVAIRIVRNAHG----NKTGYIFVDFSNEEEVKQA 66

Query: 528 LCCDGCSFSGSILKIKRPK 546
           L C+     G  +++ R K
Sbjct: 67  LKCNREYMGGRYIEVFREK 85

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 47.6 bits (113), Expect = 4e-06
 Identities = 21/153 (13%), Positives = 47/153 (30%), Gaps = 20/153 (13%)

Query: 506 VIQREKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVAS-- 562
           ++  +K  A V+      A  A+   +G    G  ++I   K        E ++      
Sbjct: 36  ILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTK 95

Query: 563 --------------VDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV 608
                           +   I   S   + +  I  ++S + +  +  + G +       
Sbjct: 96  DYGNSPLHRFKKPGSKNFQNIFPPSA-TLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFF 154

Query: 609 NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG 641
            +D     A I+        +A+  L+   +G 
Sbjct: 155 QKDR--KMALIQMGSVEEAVQALIDLHNHDLGE 185

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 41.0 bits (96), Expect = 6e-04
 Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 10/74 (13%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFV 516
                P   L + N+P S SE+ L    ++           G +       Q+++  A +
Sbjct: 114 QNIFPPSATLHLSNIPPSVSEEDLKVLFSSN----------GGVVKGFKFFQKDRKMALI 163

Query: 517 EFLTAEDASAALCC 530
           +  + E+A  AL  
Sbjct: 164 QMGSVEEAVQALID 177

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 46.8 bits (112), Expect = 4e-06
 Identities = 36/190 (18%), Positives = 63/190 (33%), Gaps = 38/190 (20%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREK-----GQAFVEF 518
           R L V NL  + +E  L ++              G  P     I  +K       AFVE+
Sbjct: 1   RVLYVGNLDKAITEDILKQYFQVG----------G--PIANIKIMIDKNNKNVNYAFVEY 48

Query: 519 LTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKI 577
             + DA+ AL   +G     +I+KI         A    + S            D    +
Sbjct: 49  HQSHDANIALQTLNGKQIENNIVKINW-------AFQSQQSS-----------SDDTFNL 90

Query: 578 FIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLN 635
           F+G ++  +  + +      F    + H   +          F+ +  Q     A+  + 
Sbjct: 91  FVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQ 150

Query: 636 GLKVGGQVLT 645
           G  + G+ L 
Sbjct: 151 GQDLNGRPLR 160

>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* Length = 437

 Score = 48.7 bits (115), Expect = 6e-06
 Identities = 35/279 (12%), Positives = 74/279 (26%), Gaps = 4/279 (1%)

Query: 103 KKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRG 162
           K  D             +        + +         RR                +   
Sbjct: 162 KHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSGRDDTSRYDE 221

Query: 163 NRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRH 222
             G       D  ++   +   +S +    + R  ++S    R   ++        ++R 
Sbjct: 222 RPGPSPLPHRDRDRDRERERRERSRERDKERERRRSRSRDRRRRSRSRDKEERRRSRERS 281

Query: 223 ADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNS 282
            DK  ++  R S+ + R R + + +++      D+ +  +       +     +      
Sbjct: 282 KDKDRDRKRRSSRSRERARRERERKEELRGGGGDMAEPSE-AGDAPPDDGPPGELGPDGP 340

Query: 283 RLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSR 342
                + R R+RE R       S R ++R    DR+ +       + S   +        
Sbjct: 341 DGPEEKGRDRDRERRRSHR---SERERRRDRDRDRDRDREHKRGERGSERGRDEARGGGG 397

Query: 343 VTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSP 381
              NGL G             G               +P
Sbjct: 398 GQDNGLEGLGNDSRDMYMESEGGDGYLAPENGYLMEAAP 436

>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* Length = 437

 Score = 44.8 bits (105), Expect = 9e-05
 Identities = 27/228 (11%), Positives = 53/228 (23%), Gaps = 7/228 (3%)

Query: 102 GKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDR 161
               D  +  +      R  E          D        R  +S  R K+R     + R
Sbjct: 201 RGGADVNIRHSGRDDTSRYDERPGPSPLPHRDRDRDRERERRERSRERDKERERRRSRSR 260

Query: 162 GNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDR 221
             R        +  + +  +   K         RS       +R E  +K      G D 
Sbjct: 261 DRRRRSRSRDKEERRRSRERSKDKDRDRKRRSSRSRE----RARRERERKEELRGGGGDM 316

Query: 222 HADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGN 281
                   +  +         D  +  +   +  D  +    +    + +          
Sbjct: 317 AEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRDRDR 376

Query: 282 SRLKRRRSRSREREDRNRRSLSLSPRAQKRTSY---YDREHEGLPSHS 326
              +  R   R R++            +   +       E EG   + 
Sbjct: 377 EHKRGERGSERGRDEARGGGGGQDNGLEGLGNDSRDMYMESEGGDGYL 424

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 44.6 bits (106), Expect = 7e-06
 Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 636
            +IG I    +   ++ +   FG +     +     E+ C FI+Y         I  L  
Sbjct: 30  AYIGNIPHFATEADLIPLFQNFGFIL----DFKHYPEKGCCFIKYDTHEQAAVCIVALAN 85

Query: 637 LKVGGQVL 644
               G+ L
Sbjct: 86  FPFQGRNL 93

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 18/89 (20%), Positives = 32/89 (35%), Gaps = 15/89 (16%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVIQREKGQA 514
           +  +   +    + N+P  A+E  L+    NF    G +                EKG  
Sbjct: 20  IRSAPPRVTTAYIGNIPHFATEADLIPLFQNF----GFILDFK---------HYPEKGCC 66

Query: 515 FVEFLTAEDASAALC-CDGCSFSGSILKI 542
           F+++ T E A+  +       F G  L+ 
Sbjct: 67  FIKYDTHEQAAVCIVALANFPFQGRNLRT 95

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 45.6 bits (108), Expect = 7e-06
 Identities = 20/81 (24%), Positives = 30/81 (37%), Gaps = 8/81 (9%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFV 516
           T  +     + +  LP  A+E  +  F +          VH           R  G+A V
Sbjct: 40  TVQSTTGHCVHMRGLPYKATENDIYNFFSPL----NPVRVH----IEIGPDGRVTGEADV 91

Query: 517 EFLTAEDASAALCCDGCSFSG 537
           EF T E+A AA+  D  +   
Sbjct: 92  EFATHEEAVAAMSKDRANMQH 112

>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 Length = 124

 Score = 45.2 bits (107), Expect = 9e-06
 Identities = 19/97 (19%), Positives = 35/97 (36%), Gaps = 8/97 (8%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           ++ LP  A  K +++F         +  V  S+        +  G+ FVEF    D  AA
Sbjct: 30  LKGLPFEAENKHVIDFF------KKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAA 83

Query: 528 LCCDGCSFSGSILKIKR--PKEFVEVASGEAEKSVAS 562
           LC          +++     K  +E      ++  + 
Sbjct: 84  LCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQSG 120

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 44.5 bits (106), Expect = 9e-06
 Identities = 18/91 (19%), Positives = 33/91 (36%), Gaps = 6/91 (6%)

Query: 452 DSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREK 511
              +      P     + NLP   +E+++ EF         +  V   LP      +R K
Sbjct: 8   HHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGL----NISAVR--LPREPSNPERLK 61

Query: 512 GQAFVEFLTAEDASAALCCDGCSFSGSILKI 542
           G  + EF   +   +AL  +  S     +++
Sbjct: 62  GFGYAEFEDLDSLLSALSLNEESLGNRRIRV 92

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 44.4 bits (105), Expect = 9e-06
 Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 10/85 (11%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
               R+ ++NLP   S + L +      L +    V+          +   G   +EF +
Sbjct: 26  AKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNT---------RDFDGTGALEFPS 76

Query: 521 AEDASAAL-CCDGCSFSGSILKIKR 544
            E    AL   +   F GS++ ++R
Sbjct: 77  EEILVEALERLNNIEFRGSVITVER 101

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 1/74 (1%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA 630
           +    K+ I  I   L  +++  ++  +G +++   +VN D E     + Y  +    +A
Sbjct: 12  RQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCE-QVNTDSETAVVNVTYSSKDQARQA 70

Query: 631 IAGLNGLKVGGQVL 644
           +  LNG ++    L
Sbjct: 71  LDKLNGFQLENFTL 84

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 42.4 bits (100), Expect = 4e-05
 Identities = 15/90 (16%), Positives = 31/90 (34%), Gaps = 10/90 (11%)

Query: 459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEF 518
             + +R+L + N+P     + L   L  + +    + V+            E     V +
Sbjct: 11  KRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVN---------TDSETAVVNVTY 61

Query: 519 LTAEDASAAL-CCDGCSFSGSILKIKRPKE 547
            + + A  AL   +G       LK+    +
Sbjct: 62  SSKDQARQALDKLNGFQLENFTLKVAYIPD 91

>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 Length = 229

 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 20/153 (13%), Positives = 45/153 (29%), Gaps = 18/153 (11%)

Query: 506 VIQREKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVD 564
           ++  +K  A V+      A  A+   +G    G  ++I   K        E ++      
Sbjct: 67  ILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTK 126

Query: 565 SVSGIVKDSPHK---------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN 609
                      K               + +  I  ++S + +  +  + G +        
Sbjct: 127 DYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ 186

Query: 610 EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ 642
           +D     A I+        +A+  L+   +G  
Sbjct: 187 KDR--KMALIQMGSVEEAVQALIDLHNHDLGEN 217

>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 Length = 229

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 10/78 (12%)

Query: 453 SVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG 512
           S        P   L + N+P S SE+ L    ++           G +       Q+++ 
Sbjct: 141 SKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSN----------GGVVKGFKFFQKDRK 190

Query: 513 QAFVEFLTAEDASAALCC 530
            A ++  + E+A  AL  
Sbjct: 191 MALIQMGSVEEAVQALID 208

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 44.9 bits (107), Expect = 2e-05
 Identities = 35/183 (19%), Positives = 65/183 (35%), Gaps = 41/183 (22%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREK------GQAFVEFLTA 521
           V  LP   +++ L                 G  P   C I R+       G AFV+F + 
Sbjct: 8   VNYLPQDMTDRELYALFRAI----------G--PINTCRIMRDYKTGYSYGYAFVDFTSE 55

Query: 522 EDASAALCC-DGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIG 580
            D+  A+   +G +     LK+   +       GE+ K                  +++ 
Sbjct: 56  MDSQRAIKVLNGITVRNKRLKVSYAR-----PGGESIKD---------------TNLYVT 95

Query: 581 GISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLK 638
            + RT++   +  I   +G +   +   ++    P   AF+ Y  +    +AI+ LN + 
Sbjct: 96  NLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI 155

Query: 639 VGG 641
             G
Sbjct: 156 PEG 158

>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 Length = 175

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 33/183 (18%), Positives = 59/183 (32%), Gaps = 38/183 (20%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE--------KGQAF 515
            ++ V  +P + SEK L E    +          G        + R+        KG  F
Sbjct: 4   IKMFVGQVPRTWSEKDLRELFEQY----------G--AVYEINVLRDRSQNPPQSKGCCF 51

Query: 516 VEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSP 574
           V F T + A  A            +    +    ++ A  E                   
Sbjct: 52  VTFYTRKAALEAQNALHNMKVLPGMHHPIQ----MKPADSEKNN------------AVED 95

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAG 633
            K+FIG IS+  +   +  +  +FG ++        D     CAF+ +  + +   AI  
Sbjct: 96  RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA 155

Query: 634 LNG 636
           ++ 
Sbjct: 156 MHQ 158

>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 Length = 99

 Score = 42.2 bits (100), Expect = 4e-05
 Identities = 25/99 (25%), Positives = 40/99 (40%), Gaps = 21/99 (21%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVI-----QREK 511
             +    RL V NL  ++SE+ L +  + +    G +  +H               ++ K
Sbjct: 3   SGSSGSGRLFVRNLSYTSSEEDLEKLFSAY----GPLSELH--------YPIDSLTKKPK 50

Query: 512 GQAFVEFLTAEDASAAL-CCDGCSFSGSILKIK--RPKE 547
           G AFV F+  E A  A    DG  F G +L +     K+
Sbjct: 51  GFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIKK 89

>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 Length = 104

 Score = 42.6 bits (101), Expect = 4e-05
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 6/84 (7%)

Query: 459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEF 518
              P     + NLP   +E+++ EF         +  V   LP      +R KG  + EF
Sbjct: 11  PKSPPYTAFLGNLPYDVTEESIKEFFRGL----NISAV--RLPREPSNPERLKGFGYAEF 64

Query: 519 LTAEDASAALCCDGCSFSGSILKI 542
              +   +AL  +  S     +++
Sbjct: 65  EDLDSLLSALSLNEESLGNKRIRV 88

>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 Length = 88

 Score = 42.0 bits (99), Expect = 5e-05
 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 14/92 (15%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
             + V+NLP  ++ + + + L ++     +++ +         + R K  AFV  L  E 
Sbjct: 6   SGILVKNLPQDSNCQEVHDLLKDY----DLKYCY---------VDRNKRTAFVTLLNGEQ 52

Query: 524 ASAAL-CCDGCSFSGSILKIKRPKEFVEVASG 554
           A  A+      SF G  L ++       + SG
Sbjct: 53  AQNAIQMFHQYSFRGKDLIVQLQPTDALLCSG 84

>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} Length = 88

 Score = 41.8 bits (99), Expect = 5e-05
 Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 3/80 (3%)

Query: 573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC---AFIEYVDQLVTPK 629
            P K+ IG ++R ++   +MEI   +G +K     V   H       A++E+ +     K
Sbjct: 3   KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEK 62

Query: 630 AIAGLNGLKVGGQVLTAVQA 649
           A+  ++G ++ GQ +TA   
Sbjct: 63  ALKHMDGGQIDGQEITATAV 82

>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} Length = 88

 Score = 39.8 bits (94), Expect = 3e-04
 Identities = 19/93 (20%), Positives = 37/93 (39%), Gaps = 11/93 (11%)

Query: 459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVIQREKGQAFVE 517
           S +P + + +  L  + ++  +ME  + +    G ++ +   +P         KG A+VE
Sbjct: 1   SMKPTK-VHIGRLTRNVTKDHIMEIFSTY----GKIKMID--MPVERMHPHLSKGYAYVE 53

Query: 518 FLTAEDASAAL-CCDGCSFSGSILKIK--RPKE 547
           F   ++A  AL   DG    G  +         
Sbjct: 54  FENPDEAEKALKHMDGGQIDGQEITATAVLAPW 86

>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 Length = 167

 Score = 43.7 bits (104), Expect = 5e-05
 Identities = 31/183 (16%), Positives = 66/183 (36%), Gaps = 41/183 (22%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREK------GQAFVEFLTA 521
           V  LP + +++       +           G      C + R+K      G  FV ++  
Sbjct: 7   VNYLPQNMTQEEFRSLFGSI----------G--EIESCKLVRDKITGQSLGYGFVNYIDP 54

Query: 522 EDASAALCC-DGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIG 580
           +DA  A+   +G       +K+   +      S  + +                  +++ 
Sbjct: 55  KDAEKAINTLNGLRLQTKTIKVSYAR-----PSSASIRD---------------ANLYVS 94

Query: 581 GISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLK 638
           G+ +T++ K + ++   +G +      V++         FI +  ++   +AI GLNG K
Sbjct: 95  GLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQK 154

Query: 639 VGG 641
             G
Sbjct: 155 PSG 157

>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 Length = 115

 Score = 42.7 bits (101), Expect = 5e-05
 Identities = 22/97 (22%), Positives = 35/97 (36%), Gaps = 17/97 (17%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE----KGQ 513
               P + L ++NL    +E+ L+     F                    +      +GQ
Sbjct: 20  NPGEPNKVLYLKNLSPRVTERDLVSLFARF----------QEKKGPPIQFRMMTGRMRGQ 69

Query: 514 AFVEFLTAEDASAAL-CCDGCSFSGSILKIK--RPKE 547
           AF+ F   E A  AL   +G    G IL I+  + K+
Sbjct: 70  AFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNKK 106

>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* Length = 110

 Score = 42.3 bits (100), Expect = 5e-05
 Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 7/99 (7%)

Query: 551 VASGEAEKSVASVDSVSGIVKDSP-HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN 609
           + S E  ++    +   G  +      +F+  I        + E  C +G +K  H  +N
Sbjct: 2   IHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIH--LN 59

Query: 610 EDHE--EP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVL 644
            D         A +EY        A   LNG ++ GQ +
Sbjct: 60  LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTI 98

>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 Length = 282

 Score = 45.3 bits (106), Expect = 6e-05
 Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 12/91 (13%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE---KGQ 513
               RP   + + NL     +  L + L       G          +  ++ R    +GQ
Sbjct: 3   VPETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFG--------QILDILVSRSLKMRGQ 54

Query: 514 AFVEFLTAEDASAAL-CCDGCSFSGSILKIK 543
           AFV F     A+ AL    G  F    ++I+
Sbjct: 55  AFVIFKEVSSATNALRSMQGFPFYDKPMRIQ 85

>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 Length = 95

 Score = 41.9 bits (99), Expect = 6e-05
 Identities = 15/80 (18%), Positives = 34/80 (42%), Gaps = 9/80 (11%)

Query: 468 VENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASA 526
           V+N+P + S   +++F   + ++   V   +              G+A V F + ++A+A
Sbjct: 20  VQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK-------GMPTGEAMVAFESRDEATA 72

Query: 527 ALC-CDGCSFSGSILKIKRP 545
           A+   +        +K+  P
Sbjct: 73  AVIDLNDRPIGSRKVKLSGP 92

>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 Length = 98

 Score = 41.9 bits (99), Expect = 6e-05
 Identities = 14/79 (17%), Positives = 33/79 (41%), Gaps = 9/79 (11%)

Query: 468 VENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASA 526
           V+N+P + S   +++F   + ++   V   +              G+A V F + ++A+A
Sbjct: 20  VQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK-------GMPTGEAMVAFESRDEATA 72

Query: 527 ALC-CDGCSFSGSILKIKR 544
           A+   +        +K+  
Sbjct: 73  AVIDLNDRPIGSRKVKLVL 91

>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 Length = 99

 Score = 41.9 bits (99), Expect = 7e-05
 Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 13/98 (13%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           ++     RL V NLP   +E+ + +    +          G        I ++KG  F+ 
Sbjct: 10  KTFTQRSRLFVGNLPPDITEEEMRKLFEKY----------GKA--GEVFIHKDKGFGFIR 57

Query: 518 FLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASG 554
             T   A  A    D     G  L+++       + SG
Sbjct: 58  LETRTLAEIAKVELDNMPLRGKQLRVRFACHSASLTSG 95

>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 Length = 97

 Score = 41.5 bits (98), Expect = 8e-05
 Identities = 16/83 (19%), Positives = 28/83 (33%), Gaps = 13/83 (15%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
           P  RL V  L  + S  AL    + F          G          +    A++++ + 
Sbjct: 16  PTTRLWVGGLGPNTSLAALAREFDRF----------G--SIRTIDHVKGDSFAYIQYESL 63

Query: 522 EDASAALC-CDGCSFSGSILKIK 543
           + A AA     G    G   +++
Sbjct: 64  DAAQAACAKMRGFPLGGPDRRLR 86

>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 Length = 97

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL 634
            ++++GG+    S   +      FG ++     ++    +  A+I+Y        A A +
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDRFGSIR----TIDHVKGDSFAYIQYESLDAAQAACAKM 73

Query: 635 NGLKVGGQ 642
            G  +GG 
Sbjct: 74  RGFPLGGP 81

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 42.0 bits (99), Expect = 8e-05
 Identities = 18/112 (16%), Positives = 37/112 (33%), Gaps = 26/112 (23%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVI-----QREKGQAF 515
           P++ +    L  +  E  L +    +    G V+ V         ++     ++  G A 
Sbjct: 5   PLKEVTFARLNDNVRETFLKDMCRKY----GEVEEVE--------ILLHPRTRKHLGLAR 52

Query: 516 VEFLTAEDASAAL-CCDGCSFSGSILKI-------KRPKEFVEVASGEAEKS 559
           V F +   A   +      S  G+I+         +R K +  + +G     
Sbjct: 53  VLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKGQQRMKYYELIVNGSYTPQ 104

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 41.6 bits (98), Expect = 9e-05
 Identities = 16/92 (17%), Positives = 32/92 (34%), Gaps = 17/92 (18%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE-----KGQAFVEF 518
           R + ++  P  A+   + E+L +                +   ++R      KG  FV F
Sbjct: 12  RSVYIKGFPTDATLDDIKEWLEDKG------------QVLNIQMRRTLHKAFKGSIFVVF 59

Query: 519 LTAEDASAALCCDGCSFSGSILKIKRPKEFVE 550
            + E A   +   G  +  + L I    ++  
Sbjct: 60  DSIESAKKFVETPGQKYKETDLLILFKDDYFA 91

>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 Length = 261

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 32/176 (18%), Positives = 55/176 (31%), Gaps = 44/176 (25%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           RL V NLP   +E+        +          G        I R++G  F+   +   A
Sbjct: 24  RLFVGNLPTDITEEDFKRLFERY----------G--EPSEVFINRDRGFGFIRLESRTLA 71

Query: 525 SAALCC-DGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS 583
             A    DG       L+I+            A                    + +  +S
Sbjct: 72  EIAKAELDGTILKSRPLRIRF-----------ATHGA---------------ALTVKNLS 105

Query: 584 RTLSSKMVMEIVCAFGP-LKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNG 636
             +S++++ +    FGP  KA    V +D        F+E+  +    KA+     
Sbjct: 106 PVVSNELLEQAFSQFGPVEKAVV--VVDDRGRATGKGFVEFAAKPPARKALERCGD 159

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 6/75 (8%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQLVTPKA 630
             +F+ G+    + + + +    +G +K  H  +N D      +    +EY        A
Sbjct: 24  WILFVTGVHEEATEEDIHDKFAEYGEIKNIH--LNLDRRTGYLKGYTLVEYETYKEAQAA 81

Query: 631 IAGLNGLKVGGQVLT 645
           + GLNG  + GQ ++
Sbjct: 82  MEGLNGQDLMGQPIS 96

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 40.9 bits (96), Expect = 1e-04
 Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 12/71 (16%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
                   + +  L     E  L+E L  F          G  P    V+  +K QA VE
Sbjct: 16  HKTPASPVVHIRGLIDGVVEADLVEALQEF----------G--PISYVVVMPKKRQALVE 63

Query: 518 FLTAEDASAAL 528
           F     A  A+
Sbjct: 64  FEDVLGACNAV 74

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 17/94 (18%), Positives = 31/94 (32%), Gaps = 17/94 (18%)

Query: 460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE----KGQAF 515
             P     V NLP +  +  +     +      ++ V         V  ++    KG  +
Sbjct: 12  TEPPYTAYVGNLPFNTVQGDIDAIFKDL----SIRSVR-------LVRDKDTDKFKGFCY 60

Query: 516 VEFLTAEDASAALCCDGCSFSGSILKIK--RPKE 547
           VEF   +    AL  DG       L++     ++
Sbjct: 61  VEFDEVDSLKEALTYDGALLGDRSLRVDIAEGRK 94

>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 Length = 109

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 13/88 (14%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAF 515
           + QS+     +    +    +++ + +  + F          G    +   +  EKG +F
Sbjct: 18  VNQSSPKNCTVYCGGIASGLTDQLMRQTFSPF----------G--QIMEIRVFPEKGYSF 65

Query: 516 VEFLTAEDASAALCC-DGCSFSGSILKI 542
           V F T E A+ A+   +G +  G ++K 
Sbjct: 66  VRFSTHESAAHAIVSVNGTTIEGHVVKC 93

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 16/77 (20%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI------QREK 511
             +  M  + + N+       ++M  L+ +           SL      +      Q+ +
Sbjct: 4   HHHHHMDTIILRNIAPHTVVDSIMTALSPY----------ASLAVNNIRLIKDKQTQQNR 53

Query: 512 GQAFVEFLTAEDASAAL 528
           G AFV+  +A DAS  L
Sbjct: 54  GFAFVQLSSAMDASQLL 70

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 13/80 (16%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           + L V NL LS SE+ + +  NN           G++      +++ +  AFV F   ED
Sbjct: 16  KILYVRNLMLSTSEEMIEKEFNNI--------KPGAV----ERVKKIRDYAFVHFSNRED 63

Query: 524 ASAAL-CCDGCSFSGSILKI 542
           A  A+   +G    GS +++
Sbjct: 64  AVEAMKALNGKVLDGSPIEV 83

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 16/74 (21%), Positives = 36/74 (48%), Gaps = 6/74 (8%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP----CAFIEYVDQLVTPKAI 631
            +++G I    + + ++++    GP+   + ++  D +       AFIE+ D   +  A+
Sbjct: 4   VVYLGSIPYDQTEEQILDLCSNVGPVI--NLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61

Query: 632 AGLNGLKVGGQVLT 645
             LNG ++G + L 
Sbjct: 62  RNLNGYQLGSRFLK 75

>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 Length = 104

 Score = 40.2 bits (94), Expect = 3e-04
 Identities = 16/71 (22%), Positives = 22/71 (30%), Gaps = 12/71 (16%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
                   + V  L  S  E  L+E L  F          G       ++   K QA VE
Sbjct: 10  HKVSVSPVVHVRGLCESVVEADLVEALEKF----------G--TICYVMMMPFKRQALVE 57

Query: 518 FLTAEDASAAL 528
           F   + A   +
Sbjct: 58  FENIDSAKECV 68

>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 Length = 89

 Score = 39.8 bits (94), Expect = 3e-04
 Identities = 21/95 (22%), Positives = 33/95 (34%), Gaps = 20/95 (21%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVIQ-----REKGQA 514
              R + V N+   A+ + L    +      G V  V         ++        KG A
Sbjct: 4   ADARSIYVGNVDYGATAEELEAHFHGC----GSVNRVT--------ILCDKFSGHPKGFA 51

Query: 515 FVEFLTAEDASAALCCDGCSFSGSILKI--KRPKE 547
           ++EF   E    +L  D   F G  +K+  KR   
Sbjct: 52  YIEFSDKESVRTSLALDESLFRGRQIKVIPKRTNR 86

>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 Length = 156

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 21/112 (18%), Positives = 51/112 (45%), Gaps = 3/112 (2%)

Query: 536 SGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIV 595
           SG +LK  R   +VE++    +      +    ++K S   +++G +S   + + + E+ 
Sbjct: 2   SGGLLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKS-CTLYVGNLSFYTTEEQIYELF 60

Query: 596 CAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGLNGLKVGGQVLT 645
              G +K     +++  +  C   F+EY  +     A+  +NG ++  +++ 
Sbjct: 61  SKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIR 112

>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 Length = 111

 Score = 40.2 bits (94), Expect = 4e-04
 Identities = 19/86 (22%), Positives = 27/86 (31%), Gaps = 13/86 (15%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
            S R    +  +NLP       + E  + F          GSL     ++      A VE
Sbjct: 5   SSGRSKTVILAKNLPAGTLAAEIQETFSRF----------GSL--GRVLLPEGGITAIVE 52

Query: 518 FLTAEDASAAL-CCDGCSFSGSILKI 542
           FL   +A  A        F    L +
Sbjct: 53  FLEPLEARKAFRHLAYSKFHHVPLYL 78

>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 Length = 150

 Score = 41.0 bits (96), Expect = 4e-04
 Identities = 23/115 (20%), Positives = 44/115 (38%), Gaps = 19/115 (16%)

Query: 441 SASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSL 500
           + ++ + +          S     ++ V NL  + ++  L      +          G L
Sbjct: 51  TFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYY----------GPL 100

Query: 501 PCIGCVIQREKGQAFVEFLTAEDASAALCC-DGCSFSGSILKIKRPKEFVEVASG 554
             +  V +   G AFVEF    DA+ A+   DG +  G  ++       VE+++G
Sbjct: 101 RSV-WVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVR-------VELSNG 147

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 16/94 (17%), Positives = 42/94 (44%), Gaps = 6/94 (6%)

Query: 561 ASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE--EP--C 616
           +    +SG +  S   +++  +  +L++  +  I   +G +      + +D +  +    
Sbjct: 3   SGSSGMSGGLAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVV--KVTIMKDKDTRKSKGV 60

Query: 617 AFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV 650
           AFI ++D+         +N  ++ G+V+ A  A+
Sbjct: 61  AFILFLDKDSAQNCTRAINNKQLFGRVIKASIAI 94

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 18/96 (18%), Positives = 35/96 (36%), Gaps = 15/96 (15%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE----K 511
               +     L + NL  + S   L   ++     + +            V+       +
Sbjct: 10  EGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLA-----------VVDVRTGTNR 58

Query: 512 GQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKE 547
              +V+F +AED   AL   G    G+ +K+++PK 
Sbjct: 59  KFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKG 94

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 18/84 (21%), Positives = 40/84 (47%)

Query: 561 ASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIE 620
           +S  S        P  +++G +SR ++  +++++    GP K+          +P  F+E
Sbjct: 2   SSGSSGMMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVE 61

Query: 621 YVDQLVTPKAIAGLNGLKVGGQVL 644
           + +      A+A +NG K+ G+ +
Sbjct: 62  FYEHRDAAAALAAMNGRKILGKEV 85

>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} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 20/118 (16%), Positives = 44/118 (37%), Gaps = 13/118 (11%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
              R L + NLP   + + + +    +     ++ +   +          +G A+V +  
Sbjct: 6   EVNRILYIRNLPYKITAEEMYDIFGKY---GPIRQIR--VGNTP----ETRGTAYVVYED 56

Query: 521 AEDASAAL-CCDGCSFSGSILKI---KRPKEFVEVASGEAEKSVASVDSVSGIVKDSP 574
             DA  A+    G + S   L +      + F ++ + + E+ +  +    GI  D P
Sbjct: 57  IFDAKNAVDHLSGFNVSNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGINTDPP 114

>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 Length = 109

 Score = 39.4 bits (92), Expect = 6e-04
 Identities = 14/77 (18%), Positives = 29/77 (37%), Gaps = 6/77 (7%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGP----LKAYHFEVNEDHEEPCAFIEYVDQLVTPKA 630
            ++FIGGI +    + ++E +         +  Y    ++      AF+EY        A
Sbjct: 9   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68

Query: 631 IAGLN--GLKVGGQVLT 645
              L    +++ G  + 
Sbjct: 69  RRKLMPGRIQLWGHQIA 85

>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* ... Length = 97

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 12/88 (13%)

Query: 459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE---KGQAF 515
             RP   + + NL     +  L + L+      G          +  ++ R    +GQAF
Sbjct: 4   ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFG--------QILDILVSRSLKMRGQAF 55

Query: 516 VEFLTAEDASAAL-CCDGCSFSGSILKI 542
           V F     A+ AL    G  F    ++I
Sbjct: 56  VIFKEVSSATNALRSMQGFPFYDKPMRI 83

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 39.2 bits (92), Expect = 7e-04
 Identities = 16/74 (21%), Positives = 37/74 (50%), Gaps = 1/74 (1%)

Query: 573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE-EPCAFIEYVDQLVTPKAI 631
             HK+FI G+  + + + + EI  A G +K      N   + +  A++EY ++    +A+
Sbjct: 16  EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAV 75

Query: 632 AGLNGLKVGGQVLT 645
             ++G+ +   ++ 
Sbjct: 76  MKMDGMTIKENIIK 89

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 39.2 bits (92), Expect = 7e-04
 Identities = 25/103 (24%), Positives = 43/103 (41%), Gaps = 9/103 (8%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVIQREKGQAF 515
               +   ++ V N+P  A+++ + E  + F    G ++ V   LP         +G  F
Sbjct: 9   VPKKQTTSKILVRNIPFQANQREIRELFSTF----GELKTVR--LPKKMTGTGAHRGFGF 62

Query: 516 VEFLTAEDASAAL--CCDGCSFSGSILKIKRPKEFVEVASGEA 556
           V+F+T +DA  A    C      G  L ++     V V SG +
Sbjct: 63  VDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSGPS 105

>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} Length = 143

 Score = 39.8 bits (93), Expect = 7e-04
 Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 6/105 (5%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFV 516
           +   P  R+ V+NL     EK L      ++  S        +  I  + + R KGQAF+
Sbjct: 40  EPGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFS--SETQRIMFDIRLMKEGRMKGQAFI 97

Query: 517 EFLTAEDASAAL-CCDGCSFSGSILKIK--RPKEFVEVASGEAEK 558
                + A+ AL   +G    G  + ++  R     +       K
Sbjct: 98  GLPNEKAAAKALKEANGYVLFGKPMVVQFARSARPKQDPKEGKRK 142

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 38.8 bits (91), Expect = 8e-04
 Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 19/96 (19%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           ++ V NL   A +  L    + +          G L  +  + +   G AFVEF    DA
Sbjct: 2   KVYVGNLGTGAGKGELERAFSYY----------GPLRTVW-IARNPPGFAFVEFEDPRDA 50

Query: 525 SAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKS 559
             A+   DG    GS ++       VE+++G   +S
Sbjct: 51  EDAVRGLDGKVICGSRVR-------VELSTGMPRRS 79

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 39.5 bits (92), Expect = 8e-04
 Identities = 23/112 (20%), Positives = 37/112 (33%), Gaps = 8/112 (7%)

Query: 450 SMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR 509
           S D         P + + + N+     ++ L   L     S G       L  +  +   
Sbjct: 16  SPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDI-----LDIVVDLSDD 70

Query: 510 EKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKIK--RPKEFVEVASGEAEK 558
             G+A++ F T E A A +    G  F G+ L I      +      G  E 
Sbjct: 71  NSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSETPQSQVAEDGSLEH 122

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 39.3 bits (92), Expect = 8e-04
 Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 16/96 (16%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE----KGQ 513
           +     R + V N+   ++ + L    ++           GS+  I  +  +     KG 
Sbjct: 31  KKEIDKRSVYVGNVDYGSTAQDLEAHFSSC----------GSINRITILCDKFSGHPKGY 80

Query: 514 AFVEFLTAEDASAALCCDGCSFSGSILKI--KRPKE 547
           A++EF       AA+  D   F G  +K+  KR   
Sbjct: 81  AYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNM 116

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 38.4 bits (90), Expect = 9e-04
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 5/70 (7%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAI-AGL 634
            +++GG+  T++   +      FG ++     +     + CAFI++  +     A     
Sbjct: 14  TLYVGGLGDTITETDLRNHFYQFGEIR----TITVVQRQQCAFIQFATRQAAEVAAEKSF 69

Query: 635 NGLKVGGQVL 644
           N L V G+ L
Sbjct: 70  NKLIVNGRRL 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	967
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	100.0
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	100.0
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.96
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.95
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.95
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.94
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.94
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.94
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.94
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.93
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.93
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.93
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.93
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.92
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.92
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.92
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.91
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.91
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.91
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.91
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.91
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.91
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.9
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.9
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.9
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.89
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.89
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.89
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.89
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.89
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.88
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.88
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.88
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.87
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.86
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.86
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.73
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.7
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.66
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.6
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.59
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.58
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.58
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.57
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.56
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.52
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.5
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.5
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.5
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.49
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.49
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.49
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.49
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.48
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.48
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.47
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.47
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.46
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.46
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.46
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.46
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.45
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.45
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.45
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.45
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.45
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.45
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.45
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.44
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.44
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.44
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.44
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.44
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.44
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.44
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.44
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.43
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.43
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.43
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.43
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.43
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.43
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.43
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.43
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.43
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.43
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.42
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.42
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.42
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.41
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.41
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.41
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.41
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.41
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.41
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.41
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.41
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.41
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.4
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.4
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.4
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.4
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.4
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.4
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.4
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.4
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.4
2div_A	99	TRNA selenocysteine associated protein; structural	99.4
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.4
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.4
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.4
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.4
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.39
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.39
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.39
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.39
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.38
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.38
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.38
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.38
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.38
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.38
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.38
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.38
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.38
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.38
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.38
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.38
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.38
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.38
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.38
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.38
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.38
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.38
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.38
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.38
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.38
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.38
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.38
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.37
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.37
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.37
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.37
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.37
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.37
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.37
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.37
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.37
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.37
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.37
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.37
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.37
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.37
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.37
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.37
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.37
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.36
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.36
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.36
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.36
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.36
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.36
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.36
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.36
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.36
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.36
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.36
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.36
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.36
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.36
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.36
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.36
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.36
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.36
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.35
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.35
2div_A	99	TRNA selenocysteine associated protein; structural	99.35
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.35
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.35
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.35
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.35
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.35
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.35
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.35
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.35
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.35
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.35
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.35
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.35
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.35
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.34
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.34
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.34
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.34
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.34
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.34
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.34
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.34
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.34
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.34
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.34
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.34
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.34
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.34
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.33
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.33
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.33
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.33
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.33
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.33
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.33
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.33
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.33
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.33
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.33
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.33
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.33
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.33
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.33
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.32
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.32
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.32
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.32
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.32
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.32
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.32
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.32
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.32
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.32
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.32
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.32
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.32
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.32
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.32
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.32
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.32
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.31
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.31
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.31
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.31
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.31
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.31
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.31
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.31
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.31
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.31
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.31
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.31
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.3
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.3
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.3
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.3
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.3
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.3
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.3
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.3
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.3
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.3
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.3
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.3
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.29
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.29
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.29
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.29
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.29
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.29
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.29
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.29
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.29
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.29
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.29
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.29
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.29
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.29
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.29
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.29
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.28
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.28
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.28
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.28
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.28
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.28
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.28
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.28
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.27
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.27
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.27
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.27
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.27
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.27
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.27
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.27
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.27
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.27
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.27
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.27
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.26
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.26
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.26
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.26
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.26
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.26
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.26
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.26
1x5p_A	97	Negative elongation factor E; structure genomics,	99.26
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.25
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.25
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.25
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.25
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.25
1x5p_A	97	Negative elongation factor E; structure genomics,	99.25
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.25
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.25
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.25
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.25
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.24
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.24
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.24
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.24
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.24
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.23
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.23
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.23
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.23
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.23
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.23
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.22
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.22
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.22
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.22
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.22
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.21
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.21
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.21
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.21
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.2
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.2
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.2
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.2
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.2
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.82
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.19
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.82
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.17
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.17
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.17
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.17
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.16
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.16
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.16
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.15
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.13
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.13
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.12
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.11
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.11
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.1
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.1
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.09
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.08
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.08
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.08
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.07
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.06
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.06
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.04
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.04
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.96
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.93
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.78
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.78
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.78
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.69
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.55
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.42
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.36
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.34
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.18
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.15
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.14
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.98
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.43
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.99
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.77
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	95.9
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	95.69
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	94.98
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.88
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	94.37
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.25
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	93.81
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	93.79
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	92.82
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	91.09
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	90.19
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	88.29
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	87.34
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	87.33
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	86.88
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	85.0

>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

Probab=100.00  E-value=1.4e-35  Score=324.72  Aligned_cols=241  Identities=16%  Similarity=0.200  Sum_probs=210.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|+.||    +         ..+.++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G----i---------~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~   86 (284)
T 3smz_A           20 RNRRKILIRGLPGDVTNQEVHDLLSDYE----L---------KYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERE   86 (284)
T ss_dssp             HCCCEEEEECCCTTCCHHHHHHHTTTSC----E---------EEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC----C---------EEEEEecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeE
Confidence            4568999999999999999999999987    2         344558899999999999999999998 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCA  617 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~a  617 (967)
                      |.|.+.                          ....+|||+|||..+++++|+++|+.||.|..+.++.+.  +.++|||
T Consensus        87 i~v~~~--------------------------~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~a  140 (284)
T 3smz_A           87 LSVQLQ--------------------------PTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYG  140 (284)
T ss_dssp             CEEEEC--------------------------CCSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEE
T ss_pred             EEEEec--------------------------CCCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEE
Confidence            999831                          134689999999999999999999999999999998874  3468999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLS  697 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~  697 (967)
                      ||+|.+.++|.+|+..|+|..|+|+.|.|.++.+.....                  ...+..+|+|.|+.....    +
T Consensus       141 fV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~~~------------------~~~~~~~l~v~nlp~~~~----~  198 (284)
T 3smz_A          141 FAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP------------------ALLHSRCLCVDRLPPGFN----D  198 (284)
T ss_dssp             EEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGCCT------------------TTTSCSEEEEECCCTTCC----C
T ss_pred             EEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCCCc------------------ccCCccEEEEecCCcccC----C
Confidence            999999999999999999999999999999997643211                  123567899999965310    2


Q ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          698 ELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       698 ~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +       +||+++|++||.|..|.|+++..|..+|||||+|.+.++|.+|+..|||..|+|+.+.|..+..
T Consensus       199 ~-------~~l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~  263 (284)
T 3smz_A          199 V-------DALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAP  263 (284)
T ss_dssp             H-------HHHHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             H-------HHHHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecC
Confidence            2       5899999999999999999998999999999999999999999999999999999999988754

>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

Probab=100.00  E-value=1.6e-35  Score=325.57  Aligned_cols=249  Identities=12%  Similarity=0.129  Sum_probs=201.1

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecc
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr  538 (967)
                      .....++|||+|||+.+|+++|+++|+.||.+..+..+      .+  ...++|||||+|.+.++|..||++||..|.|+
T Consensus        37 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~------~~--~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~  108 (292)
T 2ghp_A           37 RNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVA------DS--LKKNFRFARIEFARYDGALAAITKTHKVVGQN  108 (292)
T ss_dssp             -----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEE------EC--TTSSSEEEEEEESSHHHHHHHHTTTTCEETTE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE------EC--CCCCcEEEEEEECCHHHHHHHHHhCCcEeCCc
Confidence            34678899999999999999999999999953332111      11  12358999999999999999999999999999


Q ss_pred             eeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcC-CeeEEEEeecC-CCCCCE
Q 002093          539 ILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNE-DHEEPC  616 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G-~V~~v~l~~d~-~~skG~  616 (967)
                      +|.|.+                           ....+|||+|||..+++++|+++|+.|| .|..|.|+.+. +.++||
T Consensus       109 ~i~v~~---------------------------~~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~  161 (292)
T 2ghp_A          109 EIIVSH---------------------------LTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRF  161 (292)
T ss_dssp             ECEEEE---------------------------CCSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCE
T ss_pred             EEEEEE---------------------------CCCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceE
Confidence            999983                           1367999999999999999999999999 99999998875 456999


Q ss_pred             EEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCC
Q 002093          617 AFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSL  696 (967)
Q Consensus       617 aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i  696 (967)
                      |||+|.+.++|.+|+..|||..|.|+.|.|.++.+.......              .....+.++|+|.||.... +   
T Consensus       162 afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~~~--------------~~~~~~~~~l~v~nlp~~~-~---  223 (292)
T 2ghp_A          162 AYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRT--------------DSATLEGREIMIRNLSTEL-L---  223 (292)
T ss_dssp             EEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC-----------------------CCTTTEEEEEEECTTT-C---
T ss_pred             EEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCcccccc--------------cccCCCCceEEEECCCccc-C---
Confidence            999999999999999999999999999999999765432211              0113457889999986530 1   


Q ss_pred             ChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC--CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          697 SELEVEEVLEDVRLECARFGSVKSVNVVKYGD--SNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       697 ~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~--g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      ++       ++|+++|++||.|+.|.|+++..  |..+|||||+|.+.++|.+|+ .|||..|.|+.+.|..+.
T Consensus       224 t~-------~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~~a~  289 (292)
T 2ghp_A          224 DE-------NLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSLAD  289 (292)
T ss_dssp             CH-------HHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEEECC
T ss_pred             CH-------HHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEEEEec
Confidence            22       57999999999999999999876  899999999999999999999 999999999999987764

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.96  E-value=1.6e-28  Score=253.25  Aligned_cols=192  Identities=36%  Similarity=0.621  Sum_probs=159.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+.|+..++. .+|.++.++.++|||||+|.+.++|..||.|||..|.|++|
T Consensus         2 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~-~~v~~~~~~~~~g~afV~F~~~~~A~~Al~l~g~~~~g~~i   80 (198)
T 2yh0_A            2 AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPG-NPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSL   80 (198)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSS-CSEEEEEEETTTTEEEEEESCSHHHHHHGGGTTEEETTEEE
T ss_pred             CceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCC-CceEEeEecCCCCEEEEEeCCHHHHHHHHHhcCCEEcCceE
Confidence            34689999999999999999999999998877654433 36788999999999999999999999999999999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aF  618 (967)
                      .|.++..+..............++...........+|||+|||..+++++|+++|++||.|..|.++.+.  +.++||||
T Consensus        81 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~af  160 (198)
T 2yh0_A           81 KIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAF  160 (198)
T ss_dssp             EEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEE
T ss_pred             EEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEE
Confidence            9998877654422111111111222223334567899999999999999999999999999999999884  44589999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      |+|.+.++|.+|+..|||..|+|+.|.|.++.+..
T Consensus       161 V~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  195 (198)
T 2yh0_A          161 CEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGA  195 (198)
T ss_dssp             EEESSSSHHHHHHHHHTTCEETTEECEEEESCCCC
T ss_pred             EEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            99999999999999999999999999999997754

>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

Probab=99.95  E-value=9.7e-28  Score=241.73  Aligned_cols=169  Identities=37%  Similarity=0.668  Sum_probs=149.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ++.++|||+|||+.+|+++|+++|+.||.+.|+..... .+|.++.++.++|||||+|.+.++|..|+.|||..|.|++|
T Consensus         2 r~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~-~~v~~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i   80 (172)
T 2g4b_A            2 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPG-NPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSL   80 (172)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSS-CSEEEEEEETTTTEEEEEESSHHHHHHHGGGTTCEETTEEC
T ss_pred             CcccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCC-CceeeeEecCCCCEEEEEeCCHHHHHHHHHhCCcEecCcee
Confidence            34689999999999999999999999998777543322 26788899999999999999999999999999999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aF  618 (967)
                      .|.++..+..                    .....+|||+|||..+++++|+++|++||.|..|.++.+.  +.++||||
T Consensus        81 ~v~~~~~~~~--------------------~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~af  140 (172)
T 2g4b_A           81 KIRRPHDYQP--------------------LPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAF  140 (172)
T ss_dssp             EEECCSSCCC--------------------CTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEE
T ss_pred             eecCCcccCC--------------------CCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEE
Confidence            9997554432                    1236889999999999999999999999999999999884  44589999


Q ss_pred             EeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      |+|.+.++|.+|+..|||..|+|+.|.|.+|.
T Consensus       141 V~f~~~~~A~~A~~~l~g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          141 CEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  172 (172)
T ss_dssp             EEESSTTHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EEeCCHHHHHHHHHHcCCCEECCeEEEEEeCC
Confidence            99999999999999999999999999999873

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.95  E-value=4.8e-28  Score=254.44  Aligned_cols=168  Identities=21%  Similarity=0.300  Sum_probs=144.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. +|+..+.|+.
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~------i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~   86 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIR------VCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKP   86 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEE------EecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcc
Confidence            3567999999999999999999999999644331      33556678999999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFI  619 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFV  619 (967)
                      |+|.+.......                  ......+|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||
T Consensus        87 i~~~~~~~~~~~------------------~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV  148 (213)
T 4f02_A           87 VRIMWSQRDPSL------------------RKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFV  148 (213)
T ss_dssp             CEEEECCCCTHH------------------HHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEE
T ss_pred             cccccccccccc------------------cccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEE
Confidence            999853221111                  11235689999999999999999999999999999999998778999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus       149 ~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~~  181 (213)
T 4f02_A          149 HFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR  181 (213)
T ss_dssp             EESSHHHHHHHHHHHTTCEETTEECEEEECCCH
T ss_pred             EeCCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            999999999999999999999999999998653

>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

Probab=99.94  E-value=1.9e-26  Score=233.41  Aligned_cols=165  Identities=15%  Similarity=0.214  Sum_probs=143.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+.+|+++|+++|..||.+.++       .+.+..++.++|||||+|.+.++|..||+|||..|.|++
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~-------~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~   82 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDL-------AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNE   82 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC-------CCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceE-------EEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeE
Confidence            4567899999999999999999999999986661       457788999999999999999999999999999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFI  619 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFV  619 (967)
                      |.|.++.....                  .......+|||+|||..+++++|+++|++||.|..+   ...+.++|||||
T Consensus        83 l~v~~~~~~~~------------------~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV  141 (175)
T 1fje_B           83 IKLEKPKGRDS------------------KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYI  141 (175)
T ss_dssp             EEEECCCCSSC------------------STTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE---CSSSSCCSEEEE
T ss_pred             EEEecCCCccc------------------cccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe---cCCCCCceEEEE
Confidence            99986433211                  112246799999999999999999999999988766   445567999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus       142 ~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~k  174 (175)
T 1fje_B          142 EFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK  174 (175)
T ss_dssp             ECSSHHHHHHHHHHHTEEEETTEEEEEEECSSC
T ss_pred             EECCHHHHHHHHHHhCCCEECCeEEEEEecCCC
Confidence            999999999999999999999999999999653

>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

Probab=99.94  E-value=1.4e-25  Score=245.33  Aligned_cols=152  Identities=14%  Similarity=0.176  Sum_probs=135.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..++|||+|||..+|+++|+++|+.|| |..+.+    +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.  
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~--   93 (284)
T 3smz_A           21 NRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV----DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQP--   93 (284)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC--
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE----ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecC--
Confidence            468999999999999999999999999 888887    3368999999999999999999999999999999998752  


Q ss_pred             CCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCCc
Q 002093          653 GSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNI  731 (967)
Q Consensus       653 ~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~~  731 (967)
                                               +...|+|.||....     ++       ++|+++|++||.|..|.|+.+. +|..
T Consensus        94 -------------------------~~~~l~v~nlp~~~-----t~-------~~l~~~f~~~G~i~~~~i~~~~~~g~~  136 (284)
T 3smz_A           94 -------------------------TDALLCVANLPPSL-----TQ-------QQFEELVRPFGSLERCFLVYSERTGQS  136 (284)
T ss_dssp             -------------------------CSCEEEEESCCTTC-----CH-------HHHHHHHGGGSCEEEEEEEECTTTCCE
T ss_pred             -------------------------CCCEEEEcCCCCcC-----CH-------HHHHHHHHhcCCeeEEEEEeeCCCCcc
Confidence                                     23578999986532     33       5799999999999999999874 7889


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          732 STIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       732 ~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      +|||||+|.+.++|.+|+..|||..|.|+.+.|..+.
T Consensus       137 ~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A          137 KGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            9999999999999999999999999999999887754

>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

Probab=99.94  E-value=2.4e-26  Score=236.53  Aligned_cols=174  Identities=17%  Similarity=0.263  Sum_probs=140.5

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||.+++..|.|+.
T Consensus        10 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~   83 (196)
T 1l3k_A           10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCV------VMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRV   83 (196)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEE
Confidence            34568999999999999999999999999643321      234445688899999999999999999999999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCA  617 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~a  617 (967)
                      |.|.++.......              .........+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||
T Consensus        84 l~v~~~~~~~~~~--------------~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~a  149 (196)
T 1l3k_A           84 VEPKRAVSREDSQ--------------RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFA  149 (196)
T ss_dssp             CEEEECCC-------------------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEE
T ss_pred             eeeecccCccccc--------------ccccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceE
Confidence            9998643322110              00112345899999999999999999999999999999999884  4468999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ||+|.+.++|.+|+.. +|..|+|+.|.|.++.+...
T Consensus       150 fV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~k~~  185 (196)
T 1l3k_A          150 FVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALSKQE  185 (196)
T ss_dssp             EEEESSHHHHHHHHHC-SCCEETTEECEEEECC----
T ss_pred             EEEECCHHHHHHHHHh-CCcEECCEEEEEEecCChhH
Confidence            9999999999999985 89999999999999977544

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.94  E-value=4.1e-26  Score=227.75  Aligned_cols=162  Identities=19%  Similarity=0.254  Sum_probs=137.8

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||+++|+++|+++|+.||.+..+.       ++....+.++|||||+|.+.++|..|+. |||..+.|+.|.|
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~-------i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v   73 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIK-------IMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKI   73 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEE-------EECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEE-------EEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEE
Confidence            6899999999999999999999999644321       1222346789999999999999999997 9999999999999


Q ss_pred             eCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEe
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIE  620 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVe  620 (967)
                      .++.....                  .......+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||+
T Consensus        74 ~~~~~~~~------------------~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~  135 (166)
T 3md3_A           74 NWAFQSQQ------------------SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVS  135 (166)
T ss_dssp             EECCCCCC------------------CCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEE
T ss_pred             EEcCCCCC------------------CCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEE
Confidence            85322111                  112346799999999999999999999999999999999874  3458999999


Q ss_pred             ecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      |.+.++|.+|+..|||..|+|+.|.|.+|.
T Consensus       136 f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A          136 FTSQDDAQNAMDSMQGQDLNGRPLRINWAA  165 (166)
T ss_dssp             ESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             eCCHHHHHHHHHHhCCCccCCcEEEEEecC
Confidence            999999999999999999999999999985

>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

Probab=99.93  E-value=6.5e-26  Score=248.92  Aligned_cols=156  Identities=10%  Similarity=0.028  Sum_probs=133.0

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+|+++|+++|+.||.|..|.|+.+...++|||||+|.+.++|.+|+. |+|..|+|+.|.|.++  
T Consensus        39 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i~v~~~--  115 (292)
T 2ghp_A           39 RELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL--  115 (292)
T ss_dssp             ---CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC--
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHH-hCCcEeCCcEEEEEEC--
Confidence            4568999999999999999999999999999999999877779999999999999999995 9999999999999875  


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCC-CeEEEEEecCCCCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG-SVKSVNVVKYGDSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG-~V~~V~I~r~~~g~  730 (967)
                                                +...|+|.||....     ++       ++|+++|.+|| .|..|.|+++..|.
T Consensus       116 --------------------------~~~~l~v~nlp~~~-----t~-------~~l~~~f~~~G~~i~~v~i~~~~~~~  157 (292)
T 2ghp_A          116 --------------------------TECTLWMTNFPPSY-----TQ-------RNIRDLLQDINVVALSIRLPSLRFNT  157 (292)
T ss_dssp             --------------------------CSCEEEEECCCTTC-----CH-------HHHHHHHHHTTCCCCEEECC------
T ss_pred             --------------------------CCCEEEEECCCCCC-----CH-------HHHHHHHHHhCCCeEEEEEEeCCCCC
Confidence                                      24678899986532     22       57899999999 99999999988788


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      .+|||||+|.+.++|.+|+..|||..|.|+.+.|..+.
T Consensus       158 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          158 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             -CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            99999999999999999999999999999999887654

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.93  E-value=3.7e-26  Score=238.74  Aligned_cols=179  Identities=22%  Similarity=0.312  Sum_probs=145.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||+ |||..|.|+.
T Consensus        26 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~   99 (216)
T 2qfj_A           26 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSID------MSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRN   99 (216)
T ss_dssp             HHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------ECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CC
T ss_pred             CcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEE------EeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCee
Confidence            3467999999999999999999999999644332      22444578899999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCA  617 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~a  617 (967)
                      |.|.++.......+....         .........+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||
T Consensus       100 l~v~~~~~~~~~~~~~~~---------~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~a  170 (216)
T 2qfj_A          100 IKVGRPSNIGQAQPIIDQ---------LAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYG  170 (216)
T ss_dssp             CEEECCSCCGGGHHHHHH---------HHHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEE
T ss_pred             EEEecCCCccccchhhhh---------hhcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceE
Confidence            999876554322110000         00112346899999999999999999999999999999999884  3458999


Q ss_pred             EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          618 FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       618 FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ||+|.+.++|.+|+..|||..|+|+.|.|.++.+...
T Consensus       171 fV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~~~~  207 (216)
T 2qfj_A          171 FIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPPM  207 (216)
T ss_dssp             EEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSSCSS
T ss_pred             EEEecCHHHHHHHHHHccCCEeCCcEEEEEEecCCCC
Confidence            9999999999999999999999999999999976543

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.93  E-value=9.5e-26  Score=226.02  Aligned_cols=162  Identities=19%  Similarity=0.256  Sum_probs=139.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |+|..|.|++|
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l   75 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCR------IMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRL   75 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE------EEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEE
Confidence            357999999999999999999999999643321      23444578889999999999999999998 99999999999


Q ss_pred             EEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEE
Q 002093          541 KIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAF  618 (967)
Q Consensus       541 ~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aF  618 (967)
                      .|.+.....                    ......+|||+|||..+++++|+++|++||.|..+.++.+.  +.++||||
T Consensus        76 ~v~~~~~~~--------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~af  135 (168)
T 1b7f_A           76 KVSYARPGG--------------------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAF  135 (168)
T ss_dssp             EEEECCCCS--------------------STTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEE
T ss_pred             EEEecCCCc--------------------ccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEE
Confidence            998532111                    12346799999999999999999999999999999999885  34589999


Q ss_pred             EeecCcchHHHHHHHhCCCccCC--eEEEEEEc
Q 002093          619 IEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQA  649 (967)
Q Consensus       619 VeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a  649 (967)
                      |+|.+.++|.+|+..|||..|.|  ++|.|.+|
T Consensus       136 V~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          136 VRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             EEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             EEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            99999999999999999999988  99999876

>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

Probab=99.93  E-value=1.6e-25  Score=223.70  Aligned_cols=161  Identities=18%  Similarity=0.337  Sum_probs=137.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      .++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..+.|++|.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~------~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~   75 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCK------LVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIK   75 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEE------EEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEE
Confidence            57999999999999999999999999644321      22344478889999999999999999999 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEE
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFI  619 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFV  619 (967)
                      |.+.....                    ......+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||
T Consensus        76 v~~~~~~~--------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV  135 (167)
T 1fxl_A           76 VSYARPSS--------------------ASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI  135 (167)
T ss_dssp             EEECCCCC--------------------GGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             EEecCCCc--------------------ccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEE
Confidence            98532111                    11245789999999999999999999999999999998875  345899999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeE--EEEEEc
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQV--LTAVQA  649 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~--I~V~~a  649 (967)
                      +|.+.++|.+|+..|||..|.|+.  |.|.||
T Consensus       136 ~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          136 RFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             EESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             EeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            999999999999999999999965  888775

>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

Probab=99.92  E-value=3.6e-25  Score=223.06  Aligned_cols=163  Identities=19%  Similarity=0.247  Sum_probs=133.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeec--CCCcEEEEEEcCHHHHHHHHH-ccCceee--
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ--REKGQAFVEFLTAEDASAALC-CDGCSFS--  536 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~--~skG~aFVeF~~~e~A~~Al~-lng~~l~--  536 (967)
                      ..++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++  .++|||||+|.+.++|..|+. |||..+.  
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~------i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~   75 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEIN------VLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG   75 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTT
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccC
Confidence            357999999999999999999999999644321      22333444  789999999999999999999 9998776  


Q ss_pred             -cceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCC
Q 002093          537 -GSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEE  614 (967)
Q Consensus       537 -Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~sk  614 (967)
                       ++++.+..+....                   .......+|||+|||..+|+++|+++|++||.|..|.++.+.. .++
T Consensus        76 ~~~~~~~~~~~~~~-------------------~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~  136 (175)
T 3nmr_A           76 MHHPIQMKPADSEK-------------------NNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSR  136 (175)
T ss_dssp             CSSCCEEEECGGGC-------------------CSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEE
T ss_pred             CccceEEccccccc-------------------cccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEE
Confidence             5666666321110                   0122457899999999999999999999999999999988743 458


Q ss_pred             CEEEEeecCcchHHHHHHHhCCCccC---CeEEEEEEc
Q 002093          615 PCAFIEYVDQLVTPKAIAGLNGLKVG---GQVLTAVQA  649 (967)
Q Consensus       615 G~aFVeF~~~e~A~~Al~~LnG~~~~---Gr~I~V~~a  649 (967)
                      |||||+|.+.++|.+|+..|||..+.   |++|.|.+|
T Consensus       137 g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A          137 GCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEEC
T ss_pred             EEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEec
Confidence            99999999999999999999998775   499999987

>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

Probab=99.92  E-value=8.3e-26  Score=226.45  Aligned_cols=163  Identities=15%  Similarity=0.255  Sum_probs=138.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      +.++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. ++..|.|+.|.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~i~   74 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLK------IMKDPATGRSRGFGFLSFEKPSSVDEVVK-TQHILDGKVID   74 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEE------CCCCTTTSSCCSCEEEEESSTHHHHHHHH-SCCEETTEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EEECCCCCCccceEEEEEccHHHHHHHHh-cccccCCeEcc
Confidence            467999999999999999999999999644432      23444678899999999999999999999 45789999998


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEE
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFI  619 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFV  619 (967)
                      |.++.....                    .....+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||
T Consensus        75 v~~~~~~~~--------------------~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV  134 (167)
T 2cjk_A           75 PKRAIPRDE--------------------QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFV  134 (167)
T ss_dssp             CEECCCHHH--------------------HHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEE
T ss_pred             cccccchhh--------------------ccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEE
Confidence            875322110                    1235689999999999999999999999999999998874  457999999


Q ss_pred             eecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          620 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       620 eF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +|.+.++|.+|++ |+|..|+|+.|.|.+|.|.
T Consensus       135 ~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~pk  166 (167)
T 2cjk_A          135 TYDSADAVDRVCQ-NKFIDFKDRKIEIKRAEPR  166 (167)
T ss_dssp             EESSHHHHHHHHH-CSEECSSSSCEEEEECCCC
T ss_pred             EECCHHHHHHHHh-CCCEEeCCeEEEEeecCCC
Confidence            9999999999998 9999999999999999763

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.92  E-value=9.8e-24  Score=211.34  Aligned_cols=161  Identities=14%  Similarity=0.221  Sum_probs=140.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +.++|||+|||..+++++|+++|+.||.|..|.++.+..  .++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++.
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            367999999999999999999999999999999988743  358999999999999999999999999999999999986


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DS  729 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g  729 (967)
                      +...                     ..+...|+|.|+....     ++       ++|+++|++||.|+.|.|+++. .|
T Consensus        82 ~~~~---------------------~~~~~~l~v~nl~~~~-----t~-------~~l~~~f~~~G~i~~~~i~~~~~~~  128 (168)
T 1b7f_A           82 PGGE---------------------SIKDTNLYVTNLPRTI-----TD-------DQLDTIFGKYGSIVQKNILRDKLTG  128 (168)
T ss_dssp             CCSS---------------------TTTTCEEEEESCCTTC-----CH-------HHHHHHHTSSSCEEEEEEEECTTTC
T ss_pred             CCcc---------------------cCCCCCEEEeCCCCCC-----CH-------HHHHHhhhcCCcEEEEEEEEcCCCC
Confidence            5432                     1346789999986532     33       5799999999999999999886 78


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCC--CcceeEE
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNE--KGERLEE  766 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~--r~~~v~~  766 (967)
                      ..+|||||+|.+.++|.+|+..|||..|.|  +.+.|..
T Consensus       129 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~  167 (168)
T 1b7f_A          129 RPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL  167 (168)
T ss_dssp             CEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEe
Confidence            889999999999999999999999999988  6666643

>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

Probab=99.91  E-value=2.9e-24  Score=224.66  Aligned_cols=176  Identities=11%  Similarity=0.089  Sum_probs=134.2

Q ss_pred             CCCEEEEeCCC-CcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          462 PMRRLCVENLP-LSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp-~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      +.++|||+||| ..+|+++|+++|+.||.            |.++.+ ...+|||||+|.+.++|..||+ |||..|.|+
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~------------v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~   70 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGN------------VEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQ   70 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSC------------EEEEEECTTSTTCEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCC------------eEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            45799999999 79999999999999994            333333 2358999999999999999999 999999999


Q ss_pred             eeEEeCCCcccccccc--ccc------ccccc--cCCc-------CCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCe
Q 002093          539 ILKIKRPKEFVEVASG--EAE------KSVAS--VDSV-------SGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPL  601 (967)
Q Consensus       539 ~l~V~rp~~~~~~~~~--~~~------~~~~~--~~~~-------~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V  601 (967)
                      +|.|...+.....+..  ..+      .....  ....       ......+..+|||+|||..+|+++|+++|++||.|
T Consensus        71 ~l~v~~s~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v  150 (205)
T 3tyt_A           71 KMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVK  150 (205)
T ss_dssp             ECEEEECSCSCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCC
T ss_pred             eEEEEEccCCccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCc
Confidence            9999865422110000  000      00000  0000       00112345789999999999999999999999999


Q ss_pred             --eEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCe----EEEEEEc
Q 002093          602 --KAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ----VLTAVQA  649 (967)
Q Consensus       602 --~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr----~I~V~~a  649 (967)
                        ..|.++.+.+..+|+|||+|.+.++|.+||..|||..|.|.    ++.|++|
T Consensus       151 ~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          151 RPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             CCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             ceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence              88999887655679999999999999999999999999887    4666554

>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

Probab=99.91  E-value=6.5e-24  Score=231.80  Aligned_cols=180  Identities=19%  Similarity=0.270  Sum_probs=138.8

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHH----HHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCc
Q 002093          459 SNRPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC  533 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~----~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~  533 (967)
                      ...+.++|||+|||+.+|+++|+    ++|..||.+..+         .-..++.++|||||+|.+.++|..|+. |||.
T Consensus         5 ~~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v---------~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~   75 (282)
T 3pgw_A            5 ETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDI---------LVSRSLKMRGQAFVIFKEVSSATNALRSMQGF   75 (282)
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEE---------EEcCCCCcceEEEEEECCHHHHHHHHHHhcCC
Confidence            34678899999999999999977    899999853322         111277899999999999999999998 9999


Q ss_pred             eeecceeEEeCCCcccccc---cccc-c------------------------------------c---------------
Q 002093          534 SFSGSILKIKRPKEFVEVA---SGEA-E------------------------------------K---------------  558 (967)
Q Consensus       534 ~l~Gr~l~V~rp~~~~~~~---~~~~-~------------------------------------~---------------  558 (967)
                      .|.|+.|+|.+........   .+.. +                                    .               
T Consensus        76 ~~~g~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (282)
T 3pgw_A           76 PFYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMH  155 (282)
T ss_pred             eeCCcEEEEEEeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccc
Confidence            9999999998654322100   0000 0                                    0               


Q ss_pred             -------------cccccCC-----------------------cCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCee
Q 002093          559 -------------SVASVDS-----------------------VSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLK  602 (967)
Q Consensus       559 -------------~~~~~~~-----------------------~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~  602 (967)
                                   ....++.                       .........++|||+|||..+++++|+++|++||.|.
T Consensus       156 ~~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~  235 (282)
T 3pgw_A          156 HMPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFK  235 (282)
T ss_pred             cCCCCCCCCCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeE
Confidence                         0000000                       0001122357899999999999999999999999999


Q ss_pred             EEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC-CeEEEEEEcc
Q 002093          603 AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAV  650 (967)
Q Consensus       603 ~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~-Gr~I~V~~a~  650 (967)
                      .|.|+.+   .+|||||+|.+.++|.+|+..|||..|. |+.|.|.|+.
T Consensus       236 ~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          236 EVRLVPG---RHDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             EEEEecC---CCcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            9999866   3699999999999999999999999999 9999999974

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.91  E-value=6e-24  Score=211.99  Aligned_cols=162  Identities=14%  Similarity=0.178  Sum_probs=142.5

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      ++|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++.+..
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~   80 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQ   80 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCC
Confidence            479999999999999999999999999999998885 3468999999999999999999999999999999999986543


Q ss_pred             CcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-CCCCcc
Q 002093          654 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  732 (967)
Q Consensus       654 ~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~~g~~~  732 (967)
                      ..                   ...+...|+|.|+....     ++       ++|+++|++||.|..|.|+.+ .+|..+
T Consensus        81 ~~-------------------~~~~~~~l~v~nl~~~~-----t~-------~~l~~~f~~~G~i~~~~i~~~~~~~~~~  129 (166)
T 3md3_A           81 QS-------------------SSDDTFNLFVGDLNVNV-----DD-------ETLRNAFKDFPSYLSGHVMWDMQTGSSR  129 (166)
T ss_dssp             CC-------------------CCTTCEEEEEESCCTTC-----CH-------HHHHHHHTTSTTEEEEEEEECTTTCCEE
T ss_pred             CC-------------------CCCCCceEEECCCCCCC-----CH-------HHHHHHHhccCCeeEEEEEecCCCCCcc
Confidence            21                   12357889999986532     33       579999999999999999987 578899


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          733 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       733 G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      |||||+|.+.++|.+|+..|||..|+|+.+.|..+
T Consensus       130 g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a  164 (166)
T 3md3_A          130 GYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA  164 (166)
T ss_dssp             EEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             eEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEec
Confidence            99999999999999999999999999999998764

>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

Probab=99.91  E-value=1.2e-23  Score=209.88  Aligned_cols=160  Identities=10%  Similarity=0.190  Sum_probs=139.9

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|+.||.|..|.++.+.  +.++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++.+
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   81 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCC
Confidence            5789999999999999999999999999999999885  34579999999999999999999999999999999999865


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~  730 (967)
                      ...                     ..+...|+|.|+....     ++       ++|+++|++||.|+.|.|+.+. +|.
T Consensus        82 ~~~---------------------~~~~~~l~v~nl~~~~-----t~-------~~l~~~f~~~G~i~~~~i~~~~~~g~  128 (167)
T 1fxl_A           82 SSA---------------------SIRDANLYVSGLPKTM-----TQ-------KELEQLFSQYGRIITSRILVDQVTGV  128 (167)
T ss_dssp             CCG---------------------GGTTCEEEEESCCTTC-----CH-------HHHHHHHGGGSCEEEEEEEECTTTCC
T ss_pred             Ccc---------------------cCCCCcEEECCCCCcC-----CH-------HHHHHHHHhcCCEeEEEEEecCCCCC
Confidence            432                     1235679999986532     22       5799999999999999999875 788


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEE
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  766 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~  766 (967)
                      .+|||||+|.+.++|.+|++.|||..|.|+.+.|..
T Consensus       129 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v  164 (167)
T 1fxl_A          129 SRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV  164 (167)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             ccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEE
Confidence            899999999999999999999999999998865544

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.91  E-value=3.3e-24  Score=225.22  Aligned_cols=165  Identities=13%  Similarity=0.143  Sum_probs=141.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +.++|||+|||..+|+++|+++|++||.|.+|.|+++..  .++|||||+|.+.++|.+|+..|||..+.|+.|.+.++.
T Consensus        14 p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~   93 (213)
T 4f02_A           14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   93 (213)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccccc
Confidence            457899999999999999999999999999999998854  468999999999999999999999999999999998875


Q ss_pred             cCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCC
Q 002093          651 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN  730 (967)
Q Consensus       651 ~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~  730 (967)
                      ......                   ......|+|.||....     ++       ++|+++|++||.|+.|.|+++.. .
T Consensus        94 ~~~~~~-------------------~~~~~~l~v~nl~~~~-----t~-------~~l~~~F~~~G~i~~~~i~~d~~-~  141 (213)
T 4f02_A           94 RDPSLR-------------------KSGVGNIFIKNLDKSI-----DN-------KALYDTFSAFGNILSCKVVCDEN-G  141 (213)
T ss_dssp             CCTHHH-------------------HHCTTEEEEESCCTTC-----CH-------HHHHHHHGGGSCEEEEEEEEETT-E
T ss_pred             cccccc-------------------ccccccceECCccccc-----HH-------HHHHHHHhhcCCeEEEEeeccCC-C
Confidence            432211                   1134578999986532     33       57999999999999999998754 4


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      .+|||||+|.+.++|.+|++.|||..|+|+.+.|..+..
T Consensus       142 ~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~  180 (213)
T 4f02_A          142 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS  180 (213)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            789999999999999999999999999999999977643

>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

Probab=99.91  E-value=1.4e-23  Score=222.87  Aligned_cols=176  Identities=15%  Similarity=0.164  Sum_probs=137.7

Q ss_pred             CCCCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecC-CCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          461 RPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~-skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .+.++|||+|||+ .+|+++|+++|+.||.            |..+.+.. .+|||||+|.+.++|..|++ |||..|.|
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~G~------------i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g   99 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVYGD------------VQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHG   99 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHHTC------------EEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhCCC------------eEEEEEEECCCCEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            4567999999999 9999999999999995            23333322 27999999999999999998 99999999


Q ss_pred             ceeEEeCCCccccccccccccc--------------ccccC-CcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcC-Ce
Q 002093          538 SILKIKRPKEFVEVASGEAEKS--------------VASVD-SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFG-PL  601 (967)
Q Consensus       538 r~l~V~rp~~~~~~~~~~~~~~--------------~~~~~-~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G-~V  601 (967)
                      +.|.|.+........+......              ...+. ........+..+|||+|||..+++++|+++|++|| .|
T Consensus       100 ~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i  179 (229)
T 2adc_A          100 KPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVV  179 (229)
T ss_dssp             SBCEEECCSCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCE
T ss_pred             eEEEEEEecCccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCe
Confidence            9999986543321100000000              00000 00011123468999999999999999999999999 99


Q ss_pred             eEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC-CeEEEEEEccc
Q 002093          602 KAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVL  651 (967)
Q Consensus       602 ~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~-Gr~I~V~~a~~  651 (967)
                      ..|.++.+   ++|||||+|.+.++|.+|+..|||..|+ |+.|.|.++.+
T Consensus       180 ~~v~i~~~---~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~  227 (229)
T 2adc_A          180 KGFKFFQK---DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  227 (229)
T ss_dssp             EEEEECSS---STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             eEEEEEEC---CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecC
Confidence            99998664   5899999999999999999999999999 99999999865

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.90  E-value=1e-23  Score=218.00  Aligned_cols=174  Identities=16%  Similarity=0.170  Sum_probs=135.7

Q ss_pred             CCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecC-CCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          463 MRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       463 ~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~-skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .++|||+|||+ .+|+++|+++|+.||.+.            .+.+.. .+|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~------------~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~   70 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQ------------RVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKP   70 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCS------------EEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEE------------EEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeE
Confidence            47999999999 999999999999999533            222221 27999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccc------cc--------cccC-CcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcC-CeeE
Q 002093          540 LKIKRPKEFVEVASGEAEK------SV--------ASVD-SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFG-PLKA  603 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~------~~--------~~~~-~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G-~V~~  603 (967)
                      |.|.+........+.....      ..        .... ........+..+|||+|||..+++++|+++|++|| .|..
T Consensus        71 l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~  150 (198)
T 1qm9_A           71 IRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG  150 (198)
T ss_dssp             CEEEECCCCSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCE
T ss_pred             EEEEEecCCCcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceE
Confidence            9998644321110000000      00        0000 00011123468999999999999999999999999 9999


Q ss_pred             EEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC-CeEEEEEEccc
Q 002093          604 YHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVL  651 (967)
Q Consensus       604 v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~-Gr~I~V~~a~~  651 (967)
                      |.|+.+   .+|+|||+|.+.++|.+|+..|||..|+ |+.|.|.++.+
T Consensus       151 v~i~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~  196 (198)
T 1qm9_A          151 FKFFQK---DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  196 (198)
T ss_dssp             EEESST---TSSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECC
T ss_pred             EEEEeC---CCcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeecc
Confidence            998765   4899999999999999999999999999 99999999865

>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

Probab=99.90  E-value=4.8e-23  Score=207.45  Aligned_cols=161  Identities=16%  Similarity=0.211  Sum_probs=137.8

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC----CCCEEEEeecCcchHHHHHHHhCCCccC---CeEEEE
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH----EEPCAFIEYVDQLVTPKAIAGLNGLKVG---GQVLTA  646 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~----skG~aFVeF~~~e~A~~Al~~LnG~~~~---Gr~I~V  646 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.+..+    ++|||||+|.+.++|.+|+..|+|..+.   ++.|.+
T Consensus         3 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~   82 (175)
T 3nmr_A            3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQM   82 (175)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEE
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEE
Confidence            578999999999999999999999999999999988543    5899999999999999999999998775   677888


Q ss_pred             EEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC
Q 002093          647 VQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  726 (967)
Q Consensus       647 ~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~  726 (967)
                      .++.+....                    ..+.+.|+|.||....     ++       ++|+++|++||.|+.|.|+++
T Consensus        83 ~~~~~~~~~--------------------~~~~~~l~v~nl~~~~-----t~-------~~l~~~F~~~G~i~~v~~~~~  130 (175)
T 3nmr_A           83 KPADSEKNN--------------------AVEDRKLFIGMISKKC-----TE-------NDIRVMFSSFGQIEECRILRG  130 (175)
T ss_dssp             EECGGGCCS--------------------CGGGSEEEEESCCTTC-----CH-------HHHHHHHGGGSCEEEEEEEEC
T ss_pred             ccccccccc--------------------cCCCCeEEEcCCCCcC-----CH-------HHHHHHHHhCCCEEEEEEEEC
Confidence            777543321                    1245789999996532     33       579999999999999999999


Q ss_pred             CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCC---CcceeEE
Q 002093          727 GDSNISTIQACEGNENTASAGVGQNLTNDETNE---KGERLEE  766 (967)
Q Consensus       727 ~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~---r~~~v~~  766 (967)
                      ..|..+|||||+|.+.++|.+|++.|||..+.+   +.+.|..
T Consensus       131 ~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~  173 (175)
T 3nmr_A          131 PDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKF  173 (175)
T ss_dssp             TTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEE
T ss_pred             CCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEe
Confidence            889999999999999999999999999998874   7777754

>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

Probab=99.90  E-value=1.7e-23  Score=226.71  Aligned_cols=154  Identities=18%  Similarity=0.261  Sum_probs=136.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|+.||            .|..+.++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G------------~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~   87 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYG------------EPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILKSRP   87 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGC------------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcC------------CEEEEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEECCce
Confidence            4557999999999999999999999999            34566667889999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEE
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAF  618 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aF  618 (967)
                      |.|.+..                          ...+|||+|||..+|+++|+++|+.||.|..|.|+.+. +.++||||
T Consensus        88 l~v~~a~--------------------------~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~af  141 (261)
T 3sde_A           88 LRIRFAT--------------------------HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGF  141 (261)
T ss_dssp             CEEEECC--------------------------CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEE
T ss_pred             eEeeecc--------------------------cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEE
Confidence            9998421                          25689999999999999999999999999999998884 34689999


Q ss_pred             EeecCcchHHHHHHHhC-CCccC---CeEEEEEEcccC
Q 002093          619 IEYVDQLVTPKAIAGLN-GLKVG---GQVLTAVQAVLD  652 (967)
Q Consensus       619 VeF~~~e~A~~Al~~Ln-G~~~~---Gr~I~V~~a~~~  652 (967)
                      |+|.+.++|.+|+..|| |..+.   |++|.|.++.+.
T Consensus       142 V~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          142 VEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             EEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCCE
T ss_pred             EEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecccc
Confidence            99999999999999994 55554   999999998654

>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

Probab=99.89  E-value=9.9e-23  Score=209.45  Aligned_cols=170  Identities=13%  Similarity=0.191  Sum_probs=140.6

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+|+++|+++|+.||.|..|.|+.+..  .++|||||+|.+.++|.+|+.. +|..|.|+.|.|.++
T Consensus        11 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~   89 (196)
T 1l3k_A           11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRA   89 (196)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecc
Confidence            3468999999999999999999999999999999998854  4589999999999999999975 999999999999998


Q ss_pred             ccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-C
Q 002093          650 VLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-D  728 (967)
Q Consensus       650 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~  728 (967)
                      .+......               +....+.+.|+|.||....     ++       ++|+++|++||.|+.|.|+.+. +
T Consensus        90 ~~~~~~~~---------------~~~~~~~~~l~V~nLp~~~-----t~-------~~l~~~F~~~G~i~~v~i~~~~~~  142 (196)
T 1l3k_A           90 VSREDSQR---------------PGAHLTVKKIFVGGIKEDT-----EE-------HHLRDYFEQYGKIEVIEIMTDRGS  142 (196)
T ss_dssp             CC--------------------------CCSEEEEECCTTTC-----CH-------HHHHHHHTTTSCEEEEEEEECTTT
T ss_pred             cCcccccc---------------cccCCCcceEEEeCCCCCC-----CH-------HHHHHHHhcCCCeEEEEEeecCCC
Confidence            65432211               0112356889999986532     33       5799999999999999999885 7


Q ss_pred             CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeecc
Q 002093          729 SNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDH  770 (967)
Q Consensus       729 g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~~  770 (967)
                      |..+|||||+|.+.++|.+|+.. +|..|+|+.+.|..+...
T Consensus       143 g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~k  183 (196)
T 1l3k_A          143 GKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALSK  183 (196)
T ss_dssp             CCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC--
T ss_pred             CCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCCh
Confidence            88999999999999999999987 799999999999887653

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.89  E-value=1.1e-22  Score=212.27  Aligned_cols=174  Identities=16%  Similarity=0.234  Sum_probs=143.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|.|+.|.|.++..
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~  107 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN  107 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCC
Confidence            4789999999999999999999999999999998874  45799999999999999999999999999999999988754


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-CCCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~~g~  730 (967)
                      .......     ..     .......+.++|+|.||....     ++       +||+++|++||.|+.|.|+++ .+|.
T Consensus       108 ~~~~~~~-----~~-----~~~~~~~~~~~l~v~nlp~~~-----t~-------~~l~~~f~~~G~v~~v~i~~~~~~g~  165 (216)
T 2qfj_A          108 IGQAQPI-----ID-----QLAEEARAFNRIYVASVHQDL-----SD-------DDIKSVFEAFGKIKSATLARDPTTGK  165 (216)
T ss_dssp             CGGGHHH-----HH-----HHHHHHTTSCEEEEECCCTTC-----CH-------HHHHHHHTTSSCEEEEEEEECTTTCC
T ss_pred             ccccchh-----hh-----hhhcccCCCcEEEEeCCCCcC-----CH-------HHHHHHHhccCCeeEEEEEecCCCCC
Confidence            3211000     00     000012356889999986532     22       689999999999999999988 4788


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      .+|||||+|.+.++|.+|+..|||..|.|+.+.|..+..
T Consensus       166 ~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~  204 (216)
T 2qfj_A          166 HKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVT  204 (216)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSS
T ss_pred             cCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecC
Confidence            899999999999999999999999999999999988765

>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

Probab=99.89  E-value=8.2e-23  Score=213.70  Aligned_cols=175  Identities=18%  Similarity=0.236  Sum_probs=137.3

Q ss_pred             CCceEEEcCCC-cccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp-~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      +..+|||+||| ..+++++|+++|++||.|..|.|+.+   .+|||||+|.+.++|.+|++.|||..|.|+.|.|.++..
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~---~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~   79 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS---KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQ   79 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT---STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccC
Confidence            35789999999 89999999999999999999999876   589999999999999999999999999999999999864


Q ss_pred             CCCcCCC-----CCCCC---CCCCCCC--------CCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcC
Q 002093          652 DGSIMDN-----SGNPP---FHGIPKH--------ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARF  715 (967)
Q Consensus       652 ~~~~~~~-----~~~~~---~~~i~~~--------~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kF  715 (967)
                      ....+..     .+...   +.+.+..        .......|+++|+|.||....     ++       +||+++|++|
T Consensus        80 ~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~-----t~-------~~L~~~F~~~  147 (205)
T 3tyt_A           80 PAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEV-----TE-------ENFFEICDEL  147 (205)
T ss_dssp             SCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTC-----CH-------HHHHHHHHHH
T ss_pred             CccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCC-----CH-------HHHHHHHHhc
Confidence            3321100     00000   0000000        001123578899999996532     33       5799999999


Q ss_pred             CCe--EEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcce
Q 002093          716 GSV--KSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGER  763 (967)
Q Consensus       716 G~V--~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~  763 (967)
                      |.|  ..|.|+.+. +..+|||||+|.+.++|.+||..|||.+|.+....
T Consensus       148 G~v~~~~v~~~~~~-~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~  196 (205)
T 3tyt_A          148 GVKRPTSVKVFSGK-SERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGP  196 (205)
T ss_dssp             TCCCCSEEEECSCC-SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSS
T ss_pred             CCcceEEEEEEcCC-CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCC
Confidence            999  899998775 55569999999999999999999999999998643

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.89  E-value=4.2e-22  Score=205.07  Aligned_cols=178  Identities=19%  Similarity=0.256  Sum_probs=142.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhc----C-------CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~----G-------~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      .++|||+|||..+++++|+++|++|    |       .|..+.+..    ++|||||+|.+.++|.+|+ .|||..|.|+
T Consensus         4 ~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~----~~g~afV~F~~~~~A~~Al-~l~g~~~~g~   78 (198)
T 2yh0_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----DKNFAFLEFRSVDETTQAM-AFDGIIFQGQ   78 (198)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET----TTTEEEEEESCSHHHHHHG-GGTTEEETTE
T ss_pred             eeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecC----CCCEEEEEeCCHHHHHHHH-HhcCCEEcCc
Confidence            5799999999999999999999999    5       566666533    5899999999999999999 8999999999


Q ss_pred             EEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEE
Q 002093          643 VLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVN  722 (967)
Q Consensus       643 ~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~  722 (967)
                      .|.|.++.+.......... +....+.........+.+.|+|.||....     ++       ++|+++|++||.|..|.
T Consensus        79 ~i~v~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~v~nl~~~~-----~~-------~~l~~~f~~~G~v~~~~  145 (198)
T 2yh0_A           79 SLKIRRPHDYQPLPGMSEN-PSVYVPGVVSTVVPDSAHKLFIGGLPNYL-----ND-------DQVKELLTSFGPLKAFN  145 (198)
T ss_dssp             EEEEECCCCCCCCCCSSSC-SSCCCTTSSCCCSSCCCCEEEEECCCTTC-----CH-------HHHHHHHHTBSCEEEEE
T ss_pred             eEEEeCCCCCCCCCCCcCC-CcCCCCCCccCCCCCCCCEEEEeCCCCCC-----CH-------HHHHHHHHHcCCccEEE
Confidence            9999998665332211111 01111111112234567899999997532     32       57999999999999999


Q ss_pred             EecCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          723 VVKYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       723 I~r~~-~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      |+++. .|..+|||||+|.+.++|.+|+..|||..|.|+.+.|..+..
T Consensus       146 ~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  193 (198)
T 2yh0_A          146 LVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV  193 (198)
T ss_dssp             EEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             EeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            99885 888999999999999999999999999999999999987654

>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

Probab=99.89  E-value=2.1e-22  Score=202.55  Aligned_cols=156  Identities=19%  Similarity=0.260  Sum_probs=135.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhc----C-------CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~----G-------~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      .++|||+|||..+|+++|+++|++|    |       .|..+.+..    ++|||||+|.+.++|.+|+ .|||..|.|+
T Consensus         4 ~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~----~~g~afV~f~~~~~A~~A~-~~~~~~~~g~   78 (172)
T 2g4b_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----DKNFAFLEFRSVDETTQAM-AFDGIIFQGQ   78 (172)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET----TTTEEEEEESSHHHHHHHG-GGTTCEETTE
T ss_pred             ccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC----CCCEEEEEeCCHHHHHHHH-HhCCcEecCc
Confidence            5789999999999999999999999    6       677777654    4899999999999999999 8999999999


Q ss_pred             EEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEE
Q 002093          643 VLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVN  722 (967)
Q Consensus       643 ~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~  722 (967)
                      .|.|.++.+...                     ......|+|.|+....     ++       +||+++|++||.|..|.
T Consensus        79 ~i~v~~~~~~~~---------------------~~~~~~l~v~nlp~~~-----t~-------~~l~~~f~~~G~v~~v~  125 (172)
T 2g4b_A           79 SLKIRRPHDYQP---------------------LPGAHKLFIGGLPNYL-----ND-------DQVKELLTSFGPLKAFN  125 (172)
T ss_dssp             ECEEECCSSCCC---------------------CTTTTCEEEECCCTTC-----CH-------HHHHHHHHTTSCEEEEE
T ss_pred             eeeecCCcccCC---------------------CCCCCEEEEEcCCCcC-----CH-------HHHHHHHHhcCCceEEE
Confidence            999988744321                     1235778999986532     32       57999999999999999


Q ss_pred             EecCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          723 VVKYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       723 I~r~~-~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      |+++. +|..+|||||+|.+.++|.+|+..|||..|.|+.+.|..+
T Consensus       126 i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A          126 LVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             EEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             EEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence            99985 8889999999999999999999999999999999998764

>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

Probab=99.88  E-value=1.1e-21  Score=214.21  Aligned_cols=179  Identities=16%  Similarity=0.222  Sum_probs=139.0

Q ss_pred             CCCceEEEcCCCcccCHHHHH----HHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~----e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ...++|||+|||..+++++|+    ++|++||.|..|.|.+ .+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   85 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   85 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC-CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEE
Confidence            357899999999999999966    8999999999999876 45579999999999999999999999999999999999


Q ss_pred             EcccCCCcCC----C---------------------------------------------------------CCC-----
Q 002093          648 QAVLDGSIMD----N---------------------------------------------------------SGN-----  661 (967)
Q Consensus       648 ~a~~~~~~~~----~---------------------------------------------------------~~~-----  661 (967)
                      ++........    .                                                         .+.     
T Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~  165 (282)
T 3pgw_A           86 YAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMP  165 (282)
T ss_pred             EeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCC
Confidence            9855432000    0                                                         000     


Q ss_pred             ----CCCCCC--------------------CCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCC
Q 002093          662 ----PPFHGI--------------------PKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS  717 (967)
Q Consensus       662 ----~~~~~i--------------------~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~  717 (967)
                          .+.++.                    +.........++++|+|.||...     +++       ++|+++|++||.
T Consensus       166 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-----~~~-------~~l~~~F~~~G~  233 (282)
T 3pgw_A          166 PPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEE-----TNE-------LMLSMLFNQFPG  233 (282)
T ss_pred             CCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCc-----CCH-------HHHHHHHHhcCC
Confidence                000000                    00000012336788999999642     122       579999999999


Q ss_pred             eEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCcceeEEe
Q 002093          718 VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEV  767 (967)
Q Consensus       718 V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~-~r~~~v~~~  767 (967)
                      |+.|.|+.+.    +|||||+|.+.++|.+|+..|||..|. |+.+.|..+
T Consensus       234 i~~v~~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          234 FKEVRLVPGR----HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFA  280 (282)
T ss_pred             eEEEEEecCC----CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEe
Confidence            9999999654    579999999999999999999999999 998888764

>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

Probab=99.88  E-value=1.2e-21  Score=207.89  Aligned_cols=178  Identities=15%  Similarity=0.213  Sum_probs=140.4

Q ss_pred             CCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+.++|||+|||. .+++++|+++|++||.|..|.|+.+.   +|||||+|.+.++|.+|++.|+|..|.|+.|.|.++.
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~---~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~  108 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK  108 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC---CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEec
Confidence            3568999999999 99999999999999999999998873   8999999999999999999999999999999999986


Q ss_pred             cCCCcCCCCC----C-------C---CCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCC
Q 002093          651 LDGSIMDNSG----N-------P---PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG  716 (967)
Q Consensus       651 ~~~~~~~~~~----~-------~---~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG  716 (967)
                      +.........    .       .   .+.............++++|+|.||....     ++       ++|+++|++||
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~-----t~-------~~l~~~f~~~G  176 (229)
T 2adc_A          109 HQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSV-----SE-------EDLKVLFSSNG  176 (229)
T ss_dssp             CCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTC-----CH-------HHHHHHHHTTS
T ss_pred             CccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccC-----CH-------HHHHHHHHHcC
Confidence            5422110000    0       0   00000000011123567899999996522     32       57999999999


Q ss_pred             -CeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCcceeEEee
Q 002093          717 -SVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEVT  768 (967)
Q Consensus       717 -~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~-~r~~~v~~~~  768 (967)
                       .|..|.|...    .+|||||+|.+.++|.+|+..|||..|+ |+.+.|..+.
T Consensus       177 ~~i~~v~i~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~  226 (229)
T 2adc_A          177 GVVKGFKFFQK----DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK  226 (229)
T ss_dssp             CCEEEEEECSS----STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCeeEEEEEEC----CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEec
Confidence             9999999653    3679999999999999999999999999 9999887754

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.88  E-value=7.7e-22  Score=203.87  Aligned_cols=176  Identities=15%  Similarity=0.223  Sum_probs=139.7

Q ss_pred             CceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .++|||+|||. .+++++|+++|++||.|..|.++.+.   +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~---~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~   79 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   79 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC---SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCC
Confidence            57999999999 99999999999999999999998873   899999999999999999999999999999999998654


Q ss_pred             CCcCCCCCC-----------C---CCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCC-C
Q 002093          653 GSIMDNSGN-----------P---PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG-S  717 (967)
Q Consensus       653 ~~~~~~~~~-----------~---~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG-~  717 (967)
                      .........           .   .+.............|+++|+|.||....     ++       ++|+++|++|| .
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~-----~~-------~~l~~~f~~~G~~  147 (198)
T 1qm9_A           80 NVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSV-----SE-------EDLKVLFSSNGGV  147 (198)
T ss_dssp             SCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTC-----CH-------HHHHHHHHHTTSC
T ss_pred             CcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCC-----CH-------HHHHHHHHHcCCC
Confidence            321110000           0   00000000011123568999999996532     22       57999999999 9


Q ss_pred             eEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCcceeEEee
Q 002093          718 VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEVT  768 (967)
Q Consensus       718 V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~-~r~~~v~~~~  768 (967)
                      |..|.|..+.    +|||||+|.+.++|.+|+..|||..|+ |+.+.|..+.
T Consensus       148 v~~v~i~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~  195 (198)
T 1qm9_A          148 VKGFKFFQKD----RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK  195 (198)
T ss_dssp             CCEEEESSTT----SSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEEC
T ss_pred             ceEEEEEeCC----CcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeec
Confidence            9999997643    689999999999999999999999999 9999887754

>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

Probab=99.87  E-value=1.7e-22  Score=202.29  Aligned_cols=159  Identities=10%  Similarity=0.154  Sum_probs=137.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+|+++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..  +..+.|+.|.|.++.+
T Consensus         3 ~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~   80 (167)
T 2cjk_A            3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIP   80 (167)
T ss_dssp             GGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccc
Confidence            4789999999999999999999999999999999874  45799999999999999999984  6789999999988754


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~  730 (967)
                      ...                     ..+...|+|.||....     ++       ++|+++|++||.|+.|.|+.+. +|.
T Consensus        81 ~~~---------------------~~~~~~l~V~nlp~~~-----t~-------~~l~~~F~~~G~i~~~~i~~~~~~g~  127 (167)
T 2cjk_A           81 RDE---------------------QDKTGKIFVGGIGPDV-----RP-------KEFEEFFSQWGTIIDAQLMLDKDTGQ  127 (167)
T ss_dssp             HHH---------------------HHHCEEEEEEEECTTC-----CH-------HHHHHHHHTTSCCSEEECCCSSSSST
T ss_pred             hhh---------------------ccCCCeEEECCCCCCC-----CH-------HHHHHHHHhCccEEEEEEEEcCCCCc
Confidence            321                     1235789999986532     33       5799999999999999999884 788


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      .+|||||+|.+.++|.+|++ |||..|+|+.+.|..+.
T Consensus       128 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~  164 (167)
T 2cjk_A          128 SRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAE  164 (167)
T ss_dssp             TSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecC
Confidence            99999999999999999998 99999999999987754

>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

Probab=99.86  E-value=2.4e-21  Score=209.75  Aligned_cols=154  Identities=15%  Similarity=0.154  Sum_probs=134.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+|+++|+++|++||.|..|.|.+    ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~----~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~~   95 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR----DRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATH   95 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC----CCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeeccc
Confidence            3457999999999999999999999999999999865    489999999999999999999999999999999998842


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCc
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNI  731 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~  731 (967)
                                                 ...|+|.||....     ++       ++|+++|++||.|+.|.|+.+.+|..
T Consensus        96 ---------------------------~~~l~v~nl~~~~-----t~-------~~l~~~F~~~G~i~~v~i~~~~~g~~  136 (261)
T 3sde_A           96 ---------------------------GAALTVKNLSPVV-----SN-------ELLEQAFSQFGPVEKAVVVVDDRGRA  136 (261)
T ss_dssp             ---------------------------SSEEEEESCCTTC-----CH-------HHHHHHHGGGSCEEEEEEEEETTSCE
T ss_pred             ---------------------------CCcccccCCCCCC-----CH-------HHHHHHHHhcCCeEEEEeeeCCCCCc
Confidence                                       3578999986432     33       57999999999999999999989999


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCC-ccC---CCcceeEEee
Q 002093          732 STIQACEGNENTASAGVGQNLTND-ETN---EKGERLEEVT  768 (967)
Q Consensus       732 ~G~gFVeF~~~e~A~~Ai~~LnG~-~~~---~r~~~v~~~~  768 (967)
                      +|||||+|.+.++|.+|+..|||. .+.   ++.+.|.+..
T Consensus       137 ~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~  177 (261)
T 3sde_A          137 TGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPME  177 (261)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECC
T ss_pred             CcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecc
Confidence            999999999999999999999554 443   8888776654

>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

Probab=99.86  E-value=6.6e-22  Score=199.94  Aligned_cols=162  Identities=15%  Similarity=0.131  Sum_probs=134.0

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEee-cCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV-NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~-d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +...++|||+|||..+++++|+++|..||.+..+.+.. ..+.++|||||+|.+.++|.+|++ |||..|.|+.|.|.++
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~v~~~   88 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   88 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHh-cCCCEeCCeEEEEecC
Confidence            44578999999999999999999999998765522211 234579999999999999999995 9999999999999998


Q ss_pred             ccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCC
Q 002093          650 VLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS  729 (967)
Q Consensus       650 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g  729 (967)
                      .+....                   ...+.+.|+|.||....     ++       ++|+++|++||.|..+    ...+
T Consensus        89 ~~~~~~-------------------~~~~~~~l~v~nlp~~~-----t~-------~~l~~~F~~~g~v~~~----~~~~  133 (175)
T 1fje_B           89 KGRDSK-------------------KVRAARTLLAKNLSFNI-----TE-------DELKEVFEDALEIRLV----SQDG  133 (175)
T ss_dssp             CCSSCS-------------------TTGGGGEEEEESCCSSC-----CH-------HHHHHHCTTCSEEEEE----CSSS
T ss_pred             CCcccc-------------------ccccCCEEEEeCCCCCC-----CH-------HHHHHHHHhcCeEEEe----cCCC
Confidence            654321                   12356889999996532     33       5799999999998766    5677


Q ss_pred             CcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          730 NISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       730 ~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      ..+|||||+|.+.++|.+|+..|||..|.|+.+.|..+.
T Consensus       134 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B          134 KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             SCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             CCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            889999999999999999999999999999999887754

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.73  E-value=2.4e-17  Score=164.49  Aligned_cols=140  Identities=12%  Similarity=0.138  Sum_probs=104.3

Q ss_pred             cCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCccc
Q 002093          508 QREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTL  586 (967)
Q Consensus       508 ~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~  586 (967)
                      ..++|||||+|.+.++|.+|+. +++....+..+.+.........       .................+|||+|||..+
T Consensus        10 ~~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~v~nl~~~~   82 (158)
T 2kn4_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTV-------TEGSHHHHHHMDVEGMTSLKVDNLTYRT   82 (158)
T ss_dssp             SSCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEE-------ECCCCCSSCCCCCCBCCEEEEESCCTTC
T ss_pred             ccccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccc-------cccccccccccCCCCCCEEEEeCCCCCC
Confidence            3689999999999999999998 7763332222222211000000       0000000111123346899999999999


Q ss_pred             CHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          587 SSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       587 teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+...
T Consensus        83 ~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A           83 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             CHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECCSSC
T ss_pred             CHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCCC
Confidence            999999999999999999999874  45799999999999999999999999999999999999976543

>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

Probab=99.70  E-value=4e-17  Score=161.71  Aligned_cols=137  Identities=16%  Similarity=0.193  Sum_probs=110.3

Q ss_pred             cCCCcEEEEEEcCHHHHHHHHH-c-cCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcc
Q 002093          508 QREKGQAFVEFLTAEDASAALC-C-DGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRT  585 (967)
Q Consensus       508 ~~skG~aFVeF~~~e~A~~Al~-l-ng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~  585 (967)
                      ..-+|+++|+|.++++|.+|+. | ||..+.| +|.+...........    .................++|||+|||..
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~l~V~nl~~~   84 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTE----GSHHHHHHMHRDSCPLDCKVYVGNLGNN   84 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEEC----SSSSCCCCSCSSSSTTSCEEEEESCCSC
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcccccc----ccccccccccccCCCCCCEEEEeCCCCC
Confidence            4568999999999999999998 9 9999999 999985432211100    0000000111222345689999999999


Q ss_pred             cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          586 LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       586 ~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      +++++|+++|++||.|..|.|+.+   ++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus        85 ~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  148 (150)
T 2i2y_A           85 GNKTELERAFGYYGPLRSVWVARN---PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGE  148 (150)
T ss_dssp             CSCHHHHHHHHHHSCEEEEEECSS---SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCC
T ss_pred             CCHHHHHHHHHhhCCEEEEEEeeC---CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCC
Confidence            999999999999999999999887   7999999999999999999999999999999999998664

>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

Probab=99.66  E-value=2.1e-16  Score=147.33  Aligned_cols=91  Identities=31%  Similarity=0.330  Sum_probs=83.9

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCC---CcceeEEEEeCCHHHHHHHHHHh
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS---NISTIQACEGNENTASAGVGQNL  752 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g---~~~G~gFVeF~~~e~A~~Ai~~L  752 (967)
                      +.|++||+|.||+++.+|  .++.+|++|.+||+++|++||.|++|.|+++..+   ..+|++||+|.+.++|.+|+..|
T Consensus         2 g~ps~vl~L~Nm~~~~~l--~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~l   79 (105)
T 3v4m_A            2 GHPTEVLCLMNMVLPEEL--LDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGL   79 (105)
T ss_dssp             CSCCSEEEEESSCCGGGS--SSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCHHHc--cChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHh
Confidence            468999999999999999  5899999999999999999999999999988643   57899999999999999999999


Q ss_pred             CCCccCCCcceeEEee
Q 002093          753 TNDETNEKGERLEEVT  768 (967)
Q Consensus       753 nG~~~~~r~~~v~~~~  768 (967)
                      ||+.|+|+.+.+....
T Consensus        80 nG~~f~GR~i~v~~~~   95 (105)
T 3v4m_A           80 TGRKFANRVVVTKYCD   95 (105)
T ss_dssp             TTCEETTEECEEEEEC
T ss_pred             CCCEeCCCEEEEEEeC
Confidence            9999999999987653

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.60  E-value=1.2e-15  Score=144.33  Aligned_cols=107  Identities=21%  Similarity=0.203  Sum_probs=64.3

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||+.+|+++|+++|+.||.+..+.      .+.+  .+.++|||||+|.+.++|..||. |||..|.|++|.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~------i~~d--~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~   76 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCK------VVCD--ENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF   76 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEEE--TTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEE------Eeec--CCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            45899999999999999999999999643321      1122  34578999999999999999998 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHH
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSK  589 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~tee  589 (967)
                      |.+........            ...........+|||+|||+.+|++
T Consensus        77 V~~a~~~~~~~------------~~~~~~~~~~~~lyv~Nl~~~~T~~  112 (115)
T 4f25_A           77 VGRFKSRKERE------------AELGARAKEFTNVYIKNFGPGSTRA  112 (115)
T ss_dssp             EEESSCCCC---------------------------------------
T ss_pred             EEECCCccccc------------cccccccCCCCceEeCCCCCCcccc
Confidence            98543221110            0000112234679999999999875

>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

Probab=99.59  E-value=2.5e-15  Score=142.07  Aligned_cols=89  Identities=21%  Similarity=0.118  Sum_probs=82.1

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  755 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~  755 (967)
                      +.|++||+|.||+++.++  .++++|++|.+||+++|++||.|++|.|+++.   .+|++||+|.+.++|.+|++.|||+
T Consensus         4 p~ps~vv~L~Nm~~~~e~--~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~---~~G~~fV~f~~~e~A~~Ai~~lnG~   78 (114)
T 3s6e_A            4 PLATQCFQLSNMFNPQTE--EEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS---AQGNVYVKCPSIAAAIAAVNALHGR   78 (114)
T ss_dssp             CCCCSEEEEESSCCTTTC--CSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC---TTCCEEEECSSHHHHHHHHHHHTTC
T ss_pred             CCCCcEEEEECCCChHHc--cChhHHHHHHHHHHHHHhccCCEEEEEEecCC---CcEEEEEEECCHHHHHHHHHHhCCC
Confidence            357999999999999998  59999999999999999999999999998864   4899999999999999999999999


Q ss_pred             ccCCCcceeEEeec
Q 002093          756 ETNEKGERLEEVTD  769 (967)
Q Consensus       756 ~~~~r~~~v~~~~~  769 (967)
                      .|+|+.+.+.....
T Consensus        79 ~f~GR~i~v~~~~~   92 (114)
T 3s6e_A           79 WFAGKMITAAYVPL   92 (114)
T ss_dssp             EETTEECEEEEECH
T ss_pred             EECCEEEEEEEEcH
Confidence            99999999987643

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.58  E-value=2.3e-15  Score=142.49  Aligned_cols=81  Identities=17%  Similarity=0.340  Sum_probs=75.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ...+|||+|||..+++++|+++|++||.|.+|.|+.+.+.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~   83 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   83 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCC
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCc
Confidence            45789999999999999999999999999999999998778999999999999999999999999999999999998764


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        84 ~   84 (115)
T 4f25_A           84 K   84 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.58  E-value=6.1e-15  Score=146.95  Aligned_cols=147  Identities=13%  Similarity=0.081  Sum_probs=108.2

Q ss_pred             EEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEE
Q 002093          603 AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVL  682 (967)
Q Consensus       603 ~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl  682 (967)
                      .+.|+.+...++|||||+|.+.++|.+|+..+++....+..+.+.............        ..........+...|
T Consensus         2 ~~kl~ln~~~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~l   73 (158)
T 2kn4_A            2 QYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGS--------HHHHHHMDVEGMTSL   73 (158)
T ss_dssp             EEEEEEECSSCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCC--------CCSSCCCCCCBCCEE
T ss_pred             cEEEEecCccccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccccc--------cccccccCCCCCCEE
Confidence            466777777789999999999999999999888754433333332221110000000        000011123457889


Q ss_pred             EccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc
Q 002093          683 KLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKG  761 (967)
Q Consensus       683 ~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~  761 (967)
                      +|.||....     ++       +||+++|++||.|+.|.|+++. +|..+|||||+|.+.++|.+|+..|||..|.|+.
T Consensus        74 ~v~nl~~~~-----~~-------~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~  141 (158)
T 2kn4_A           74 KVDNLTYRT-----SP-------DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRE  141 (158)
T ss_dssp             EEESCCTTC-----CH-------HHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSE
T ss_pred             EEeCCCCCC-----CH-------HHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            999996532     33       5799999999999999999884 7889999999999999999999999999999999


Q ss_pred             ceeEEeec
Q 002093          762 ERLEEVTD  769 (967)
Q Consensus       762 ~~v~~~~~  769 (967)
                      +.|..+..
T Consensus       142 l~v~~a~~  149 (158)
T 2kn4_A          142 LRVQMARY  149 (158)
T ss_dssp             EEEEEECC
T ss_pred             EEEEECCC
Confidence            99988765

>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}

Probab=99.57  E-value=5.4e-15  Score=136.21  Aligned_cols=79  Identities=15%  Similarity=0.302  Sum_probs=73.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+|+++|+++|++||.|..|.|+++..  .++|||||+|.+.++|.+|++.|||..|+|+.|.|.+|.
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~Ak   97 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR   97 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            357899999999999999999999999999999998854  468999999999999999999999999999999999997


Q ss_pred             c
Q 002093          651 L  651 (967)
Q Consensus       651 ~  651 (967)
                      |
T Consensus        98 P   98 (99)
T 4fxv_A           98 P   98 (99)
T ss_dssp             B
T ss_pred             C
Confidence            6

>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

Probab=99.56  E-value=5.4e-16  Score=146.65  Aligned_cols=90  Identities=21%  Similarity=0.357  Sum_probs=73.6

Q ss_pred             cccccccccccCCCcchhcccccccCCCCccccccccccccccccccCCCCCCCCCCC-Cccc--------ccceEEEEe
Q 002093          858 CNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQ-GHIF--------EPGCVFVEY  928 (967)
Q Consensus       858 ~~i~~~c~~~~n~f~~~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~~~~~~e~~~-~~v~--------~~G~VyVkF  928 (967)
                      ++|++.|++|.|||++..+.. +.+                   ..++.+|+.++|++ |.|.        ..|++||+|
T Consensus         3 ~p~ps~vv~L~Nm~~~~e~~d-~~~-------------------~~el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f   62 (114)
T 3s6e_A            3 QPLATQCFQLSNMFNPQTEEE-VGW-------------------DTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKC   62 (114)
T ss_dssp             CCCCCSEEEEESSCCTTTCCS-TTH-------------------HHHHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEEC
T ss_pred             CCCCCcEEEEECCCChHHccC-hhH-------------------HHHHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEE
Confidence            458899999999999987433 111                   14556666667765 4443        259999999


Q ss_pred             cCHHHHHHHHHHhhccccCCceEEEEecChhhHHhhcCC
Q 002093          929 MRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK  967 (967)
Q Consensus       929 ~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~~Fp~  967 (967)
                      .+.++|.+|+++||||||+||+|.|.|.+...|+.+||.
T Consensus        63 ~~~e~A~~Ai~~lnG~~f~GR~i~v~~~~~~~y~~~fp~  101 (114)
T 3s6e_A           63 PSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHNLFPD  101 (114)
T ss_dssp             SSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHHHCGG
T ss_pred             CCHHHHHHHHHHhCCCEECCEEEEEEEEcHHHHHHhCcc
Confidence            999999999999999999999999999999999999984

>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

Probab=99.52  E-value=5.1e-14  Score=139.29  Aligned_cols=142  Identities=16%  Similarity=0.069  Sum_probs=108.0

Q ss_pred             EeecCCCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEc
Q 002093          606 FEVNEDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKL  684 (967)
Q Consensus       606 l~~d~~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~~a~~~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L  684 (967)
                      |..+...-+|+++|+|.+.++|.+|++.| ||..+.| .|.+.++............     ...........+.+.|+|
T Consensus         5 l~l~g~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~l~V   78 (150)
T 2i2y_A            5 LILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHH-----HHHHMHRDSCPLDCKVYV   78 (150)
T ss_dssp             EEECCSSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSS-----CCCCSCSSSSTTSCEEEE
T ss_pred             eeeccccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcccccccccc-----ccccccccCCCCCCEEEE
Confidence            33343345899999999999999999999 9999999 9999877542211100000     000011222456789999


Q ss_pred             cccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCccee
Q 002093          685 KNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERL  764 (967)
Q Consensus       685 ~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v  764 (967)
                      .||.....     +       ++|+++|++||.|+.|.|+++    .+|||||+|.+.++|.+|+..|||..|.|+.+.|
T Consensus        79 ~nl~~~~t-----~-------~~l~~~F~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  142 (150)
T 2i2y_A           79 GNLGNNGN-----K-------TELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRV  142 (150)
T ss_dssp             ESCCSCCS-----C-------HHHHHHHHHHSCEEEEEECSS----SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEE
T ss_pred             eCCCCCCC-----H-------HHHHHHHHhhCCEEEEEEeeC----CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            99965333     2       578999999999999999986    5789999999999999999999999999999999


Q ss_pred             EEeec
Q 002093          765 EEVTD  769 (967)
Q Consensus       765 ~~~~~  769 (967)
                      ..+..
T Consensus       143 ~~a~~  147 (150)
T 2i2y_A          143 ELSNG  147 (150)
T ss_dssp             EECCC
T ss_pred             EEcCC
Confidence            77643

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.50  E-value=4.2e-14  Score=131.79  Aligned_cols=86  Identities=15%  Similarity=0.168  Sum_probs=75.4

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC--CCCcceeEEEEeCCHHHHHHHHHHhC
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG--DSNISTIQACEGNENTASAGVGQNLT  753 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~--~g~~~G~gFVeF~~~e~A~~Ai~~Ln  753 (967)
                      +.|++||+|.||+++.+|   .    .++.+||+++|++||.|++|.|+++.  .+.++|||||+|.+.++|.+|+..||
T Consensus         5 ~~~s~~l~l~Nm~~~~~l---~----dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~ln   77 (105)
T 2pe8_A            5 KCPTKVVLLRNMVGAGEV---D----EDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLN   77 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC----------CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEEcCCChHHh---h----HHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHC
Confidence            468999999999998877   2    24678999999999999999999874  36789999999999999999999999


Q ss_pred             CCccCCCcceeEEee
Q 002093          754 NDETNEKGERLEEVT  768 (967)
Q Consensus       754 G~~~~~r~~~v~~~~  768 (967)
                      |+.|+|+.+.+....
T Consensus        78 G~~~~Gr~i~v~~a~   92 (105)
T 2pe8_A           78 GRYFGGRVVKACFYN   92 (105)
T ss_dssp             TCEETTEECEEEECC
T ss_pred             CCEECCcEEEEEEcC
Confidence            999999999887753

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=1.3e-13  Score=127.22  Aligned_cols=83  Identities=22%  Similarity=0.502  Sum_probs=77.5

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+...++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   92 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCC
Confidence            45689999999999999999999999999999999998777899999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        93 ~~~   95 (103)
T 2cqi_A           93 PSS   95 (103)
T ss_dssp             TTC
T ss_pred             Ccc
Confidence            543

>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

Probab=99.50  E-value=2.5e-14  Score=136.01  Aligned_cols=85  Identities=19%  Similarity=0.253  Sum_probs=75.6

Q ss_pred             CCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCC-----CCcceeEEEEeCCHHHHHHHHHH
Q 002093          677 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-----SNISTIQACEGNENTASAGVGQN  751 (967)
Q Consensus       677 ~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~-----g~~~G~gFVeF~~~e~A~~Ai~~  751 (967)
                      .|++||+|.||+++++|.       ++|.+||+++|++||.|++|.|+++..     +.++|++||+|.+.++|.+|+..
T Consensus        18 ~ps~vl~L~Nm~~~~el~-------ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~   90 (118)
T 3ue2_A           18 QESTVMVLRNMVDPKDID-------DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQA   90 (118)
T ss_dssp             HSCCEEEEESCSCGGGCC-------TTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCHHHHH-------HHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHH
Confidence            479999999999998872       247799999999999999999998743     45779999999999999999999


Q ss_pred             hCCCccCCCcceeEEee
Q 002093          752 LTNDETNEKGERLEEVT  768 (967)
Q Consensus       752 LnG~~~~~r~~~v~~~~  768 (967)
                      |||+.|+|+.+.+....
T Consensus        91 LnGr~f~GR~i~v~~~~  107 (118)
T 3ue2_A           91 LNGRWFAGRKVVAEVYD  107 (118)
T ss_dssp             HTTCEETTEECEEEEEC
T ss_pred             HCCCEECCcEEEEEEcC
Confidence            99999999999987753

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.49  E-value=1.8e-14  Score=140.46  Aligned_cols=122  Identities=10%  Similarity=0.121  Sum_probs=77.1

Q ss_pred             cEEEEEEcCHHHHHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHH
Q 002093          512 GQAFVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKM  590 (967)
Q Consensus       512 G~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teed  590 (967)
                      -|+|++|.+...|..||+ ++|-...|+.- +.    +..                +........+|||+|||..+++++
T Consensus         5 ~~~~~~~~~~~~~~~a~~~~~g~~~~g~~~-~~----~~~----------------~~~~~~~~~~l~V~nLp~~~te~~   63 (135)
T 2lea_A            5 HHHHHHSSGLVPRGSHMASMTGGQQMGRGS-MS----YGR----------------PPPDVEGMTSLKVDNLTYRTSPDT   63 (135)
T ss_dssp             -------------------------------CC----SCC----------------SCSSGGGCCCEEEECCCSSCHHHH
T ss_pred             ccccccccCCCchhhhhhhccCCCCCCCCC-CC----cCC----------------CCCCCCCCCEEEEeCCCCCCCHHH
Confidence            367889999999999999 88866555431 11    000                011123467899999999999999


Q ss_pred             HHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          591 VMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       591 L~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      |+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        64 L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~~~  129 (135)
T 2lea_A           64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  129 (135)
T ss_dssp             HHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCCCC
T ss_pred             HHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            99999999999999998874  45799999999999999999999999999999999999976544

>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*

Probab=99.49  E-value=1.5e-14  Score=167.63  Aligned_cols=82  Identities=18%  Similarity=0.267  Sum_probs=75.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+.++|||+|||..+|+++|.++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+||..|||..|+|+.|.|.++
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a  179 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVE  179 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            446899999999999999999999999999999999874  456999999999999999999999999999999999999


Q ss_pred             ccCC
Q 002093          650 VLDG  653 (967)
Q Consensus       650 ~~~~  653 (967)
                      .+..
T Consensus       180 ~~~~  183 (437)
T 3pgw_S          180 RGRT  183 (437)
T ss_pred             CCCC
Confidence            7644

>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}

Probab=99.49  E-value=2.9e-14  Score=131.30  Aligned_cols=77  Identities=21%  Similarity=0.288  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ...+|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|+. |||..|.|++|
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~------i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l   91 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAK------LIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI   91 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeE------eeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            456899999999999999999999999644332      33556678999999999999999999999 99999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +|.+
T Consensus        92 ~V~~   95 (99)
T 4fxv_A           92 KVSY   95 (99)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9985

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

Probab=99.49  E-value=2.5e-14  Score=129.58  Aligned_cols=80  Identities=10%  Similarity=0.149  Sum_probs=72.3

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcC-CeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEEEcc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAV  650 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G-~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~~a~  650 (967)
                      ++|||+|||..+|+++|+++|++|| .|.+|+|++++  +.++|||||+|.+.++|.+|++.| ++..|+|+.|.|.+|.
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            6899999999999999999999999 79999998875  457999999999999999999987 5678999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      |...
T Consensus        82 ~~~~   85 (91)
T 2lxi_A           82 PKPK   85 (91)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7543

>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

Probab=99.48  E-value=1e-13  Score=123.63  Aligned_cols=84  Identities=36%  Similarity=0.671  Sum_probs=72.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+.|+..... ..|.++.+..++|||||+|.+.++|.+|+.|||..|.|+.|
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~-~~v~~~~~~~~kg~afV~f~~~~~a~~A~~l~g~~~~g~~l   82 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPG-NPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSL   82 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSS-CSEEEEEECSSSSEEEEEESSHHHHHHHGGGTTCEETTEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCC-CcceEEEecCCCcEEEEEcCCHHHHHHHHhcCCCEECCeEE
Confidence            45689999999999999999999999975555433222 36778888888999999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.+|
T Consensus        83 ~V~rp   87 (87)
T 2hzc_A           83 KIRRP   87 (87)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            99875

>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

Probab=99.48  E-value=2.1e-13  Score=125.87  Aligned_cols=84  Identities=17%  Similarity=0.276  Sum_probs=78.0

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+...++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            34578999999999999999999999999999999999877789999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        92 ~~~~   95 (103)
T 2cq3_A           92 ARVM   95 (103)
T ss_dssp             SSCC
T ss_pred             cCCC
Confidence            7543

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.47  E-value=1.1e-13  Score=130.01  Aligned_cols=81  Identities=7%  Similarity=0.142  Sum_probs=74.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|.|+.|.|.++
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a   83 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLD   83 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3568999999999999999999999999999999999864  46899999999999999999999999999999999998


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      ...
T Consensus        84 ~~~   86 (110)
T 3s8s_A           84 IKG   86 (110)
T ss_dssp             STT
T ss_pred             CCC
Confidence            543

>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

Probab=99.47  E-value=1.5e-13  Score=125.47  Aligned_cols=80  Identities=18%  Similarity=0.197  Sum_probs=74.9

Q ss_pred             CCceEEEcCCCcccCHHHHH----HHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~----e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ...+|||+|||..+++++|+    ++|++||.|..|.|+.+..+ +|||||+|.+.++|.+|+..|||..|+|+.|.|.+
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   86 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL   86 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC-CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            46799999999999999999    99999999999999988766 99999999999999999999999999999999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      +.+..
T Consensus        87 a~~~~   91 (96)
T 2dgx_A           87 ATGAS   91 (96)
T ss_dssp             CCCSS
T ss_pred             cCCCC
Confidence            96644

>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

Probab=99.46  E-value=1e-13  Score=139.49  Aligned_cols=139  Identities=16%  Similarity=0.199  Sum_probs=75.5

Q ss_pred             EEEcCHHHHHHHHH-ccCceee--cceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHH
Q 002093          516 VEFLTAEDASAALC-CDGCSFS--GSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVM  592 (967)
Q Consensus       516 VeF~~~e~A~~Al~-lng~~l~--Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~  592 (967)
                      .+|.+.++|..|+. |++....  |+.+.+................+...............++|||+|||..+++++|+
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~   90 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQ   90 (165)
T ss_dssp             -------------------------------------------------------CCCCC-CEEEEEESCCTTCCHHHHH
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCccccccccCccccccCCCCCCCCCCCCCCCCCEEEEeCCCCCCCHHHHH
Confidence            78999999999999 8886654  55554432110000000000000000000011112345789999999999999999


Q ss_pred             HHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          593 EIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       593 e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ++|++||.|..|.|+.+..  .++|||||+|.+.++|.+||..|||..|.|+.|.|.++.+...
T Consensus        91 ~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  154 (165)
T 1rk8_A           91 EKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGP  154 (165)
T ss_dssp             HHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEECC-
T ss_pred             HHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCCC
Confidence            9999999999999998843  4589999999999999999999999999999999999976543

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

Probab=99.46  E-value=1.4e-13  Score=122.82  Aligned_cols=72  Identities=18%  Similarity=0.261  Sum_probs=66.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      +..|||+||++.+||++|+++|.+||            +|.++.+..++|||||+|.+.++|..|+. ||+..|.|++|+
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G------------~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~   74 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHG------------PLVSFHPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIF   74 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhC------------CEEEEEEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEE
Confidence            45899999999999999999999999            56777777799999999999999999999 999999999999


Q ss_pred             EeCCC
Q 002093          542 IKRPK  546 (967)
Q Consensus       542 V~rp~  546 (967)
                      |..++
T Consensus        75 V~~A~   79 (89)
T 2wbr_A           75 AESPS   79 (89)
T ss_dssp             EECCC
T ss_pred             EEECC
Confidence            98653

>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

Probab=99.46  E-value=1.4e-13  Score=129.75  Aligned_cols=103  Identities=15%  Similarity=0.179  Sum_probs=83.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.         -...+.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~---------i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   76 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIR---------VGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRY   76 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEE---------EECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE---------EeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            4567999999999999999999999999533221         11236679999999999999999999 9999999999


Q ss_pred             eEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCC
Q 002093          540 LKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGP  600 (967)
Q Consensus       540 l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~  600 (967)
                      |.|.+......                            ..+++...++++|.++|++||.
T Consensus        77 l~v~~a~~~~~----------------------------~~~~~~~~~~~~l~~~~~~~g~  109 (115)
T 3lqv_A           77 LVVLYYNANRA----------------------------FQKMDTKKKEEQLKLLKEKYGI  109 (115)
T ss_dssp             CEEEECCHHHH----------------------------TTTSCHHHHHHHHHHHHHHHCC
T ss_pred             EEEEEecCChh----------------------------hhhhhHhHhHHHHHHHHHHhCC
Confidence            99984221100                            0467788899999999999995

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.46  E-value=1.3e-13  Score=124.45  Aligned_cols=82  Identities=15%  Similarity=0.287  Sum_probs=76.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   85 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN   85 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            35689999999999999999999999999999999987666799999999999999999999999999999999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        86 ~~   87 (92)
T 2dgv_A           86 AS   87 (92)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

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

Probab=99.45  E-value=1.1e-13  Score=125.31  Aligned_cols=77  Identities=19%  Similarity=0.186  Sum_probs=65.9

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhh-hhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c-cCceeecce
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFL-LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSGSI  539 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG-~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l-ng~~l~Gr~  539 (967)
                      +++|||+|||+++|+++|+++|++|| .+..+      ..+.+..++.++|||||+|.+.++|.+||+ + +++.|.|++
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v------~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~   74 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREV------RLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQK   74 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBC------CSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEE------EEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEE
Confidence            36899999999999999999999999 43332      244667789999999999999999999998 6 567899999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        75 i~V~~a   80 (91)
T 2lxi_A           75 VSMHYS   80 (91)
T ss_dssp             EEEECC
T ss_pred             EEEEEc
Confidence            999853

>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

Probab=99.45  E-value=3.5e-13  Score=123.32  Aligned_cols=83  Identities=20%  Similarity=0.420  Sum_probs=76.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   85 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            356899999999999999999999999999999998875  446899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        86 ~~~~~   90 (99)
T 1whw_A           86 TIKKE   90 (99)
T ss_dssp             CCCST
T ss_pred             CCCcc
Confidence            77654

>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}

Probab=99.45  E-value=1.5e-13  Score=122.52  Aligned_cols=79  Identities=16%  Similarity=0.354  Sum_probs=72.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            46799999999999999999999999999999999874  3458999999999999999999999999999999999986


Q ss_pred             c
Q 002093          651 L  651 (967)
Q Consensus       651 ~  651 (967)
                      +
T Consensus        85 ~   85 (87)
T 3bs9_A           85 R   85 (87)
T ss_dssp             -
T ss_pred             C
Confidence            5

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.8e-13  Score=128.15  Aligned_cols=82  Identities=17%  Similarity=0.297  Sum_probs=76.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            34578999999999999999999999999999999998877789999999999999999999999999999999999986


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      +.
T Consensus       106 ~~  107 (109)
T 2err_A          106 AR  107 (109)
T ss_dssp             CS
T ss_pred             CC
Confidence            53

>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

Probab=99.45  E-value=2.2e-13  Score=120.38  Aligned_cols=78  Identities=14%  Similarity=0.238  Sum_probs=72.6

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .+|||+|||..+++++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~   81 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAKL   81 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCcC
Confidence            5799999999999999999999999999999988843  45899999999999999999999999999999999999764

>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

Probab=99.45  E-value=1.5e-13  Score=129.57  Aligned_cols=81  Identities=15%  Similarity=0.342  Sum_probs=74.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +...++|||+|||..+++++|+++|++||.|..|.|+.+. .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   83 (115)
T 3lqv_A            5 PEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP-ETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYN   83 (115)
T ss_dssp             TTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST-TTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC-CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            3456899999999999999999999999999999998763 359999999999999999999999999999999999996


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      +.
T Consensus        84 ~~   85 (115)
T 3lqv_A           84 AN   85 (115)
T ss_dssp             HH
T ss_pred             CC
Confidence            54

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.45  E-value=1.7e-13  Score=125.24  Aligned_cols=82  Identities=17%  Similarity=0.276  Sum_probs=75.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-----CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-----~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+..     .++|||||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            468999999999999999999999999999999988754     458999999999999999999999999999999999


Q ss_pred             EcccCCC
Q 002093          648 QAVLDGS  654 (967)
Q Consensus       648 ~a~~~~~  654 (967)
                      ++.+...
T Consensus        84 ~a~~~~~   90 (98)
T 2cpf_A           84 ISERATK   90 (98)
T ss_dssp             CSSCSSC
T ss_pred             EccCCCC
Confidence            9976544

>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*

Probab=99.44  E-value=2.6e-13  Score=120.47  Aligned_cols=78  Identities=17%  Similarity=0.350  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.++.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            3578999999999999999999999999999999988744  35999999999999999999999999999999999987

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

Probab=99.44  E-value=1.4e-13  Score=125.96  Aligned_cols=78  Identities=13%  Similarity=0.246  Sum_probs=70.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCC--eeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCC----ccCCeEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGP--LKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGL----KVGGQVL  644 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~--V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~----~~~Gr~I  644 (967)
                      .-++|||+|||+.+|+++|+++|++||.  |.+|+|++|+  +.++|||||+|.+.++|.+|++.|||.    .|+|++|
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i   87 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI   87 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEE
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEE
Confidence            4579999999999999999999999995  6689999885  457999999999999999999999996    5899999


Q ss_pred             EEEEcc
Q 002093          645 TAVQAV  650 (967)
Q Consensus       645 ~V~~a~  650 (967)
                      .|.+|.
T Consensus        88 ~V~~Ak   93 (95)
T 2lkz_A           88 GVDFAK   93 (95)
T ss_dssp             EEEECC
T ss_pred             EEEEcc
Confidence            999985

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.44  E-value=5.8e-13  Score=125.41  Aligned_cols=85  Identities=14%  Similarity=0.315  Sum_probs=77.1

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   91 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNW   91 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3456899999999999999999999999999999999884  34589999999999999999999999999999999999


Q ss_pred             cccCCCc
Q 002093          649 AVLDGSI  655 (967)
Q Consensus       649 a~~~~~~  655 (967)
                      +.+....
T Consensus        92 a~~~~~~   98 (115)
T 2dgo_A           92 ATRKPPA   98 (115)
T ss_dssp             SSCCCCC
T ss_pred             ccCCCCC
Confidence            9776543

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.44  E-value=3.7e-13  Score=124.93  Aligned_cols=83  Identities=18%  Similarity=0.297  Sum_probs=76.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec---CCCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d---~~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~  647 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+   .+.++|||||+|.+.++|.+|+..| ||..|.|+.|.|.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~   92 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   92 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEE
Confidence            45689999999999999999999999999999999887   4556999999999999999999999 9999999999999


Q ss_pred             EcccCCC
Q 002093          648 QAVLDGS  654 (967)
Q Consensus       648 ~a~~~~~  654 (967)
                      ++.+...
T Consensus        93 ~a~~~~~   99 (107)
T 2cph_A           93 WADSEVT   99 (107)
T ss_dssp             ECCCCCC
T ss_pred             eCCCCCC
Confidence            9977544

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.44  E-value=3.4e-13  Score=124.45  Aligned_cols=83  Identities=14%  Similarity=0.207  Sum_probs=76.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVA   90 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEC
Confidence            4578999999999999999999999999999999988753  46899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        91 ~~~~~   95 (103)
T 2dnm_A           91 RYGRR   95 (103)
T ss_dssp             SSCCS
T ss_pred             CcCCC
Confidence            76543

>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}

Probab=99.44  E-value=2.3e-13  Score=121.44  Aligned_cols=80  Identities=26%  Similarity=0.510  Sum_probs=74.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC---CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH---EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~---skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+++|||+|||..+++++|+++|++||.|..|.|+.+..+   ++|||||+|.+.++|.+|+..|||..|+|+.|.|.++
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            3679999999999999999999999999999999888642   6899999999999999999999999999999999999


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .+.
T Consensus        83 ~~~   85 (88)
T 4a8x_A           83 LAP   85 (88)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=1.9e-13  Score=126.97  Aligned_cols=80  Identities=14%  Similarity=0.090  Sum_probs=72.4

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC--CCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln--G~~~~Gr~I~V~~  648 (967)
                      +....+|||+|||..+++++|+++|++||.|..|.|+++    +|||||+|.+.++|..|+..|+  |..|.|++|.|.+
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~   88 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF   88 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEE
Confidence            445789999999999999999999999999999999875    8999999999999999999886  4789999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        89 A~~~~~   94 (105)
T 1sjq_A           89 SNHKEL   94 (105)
T ss_dssp             CSSSSC
T ss_pred             cCCCCC
Confidence            976543

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

Probab=99.44  E-value=1.6e-13  Score=122.34  Aligned_cols=73  Identities=15%  Similarity=0.257  Sum_probs=69.3

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..-|||+||+..+|+++|+++|.+||+|..+.+..    ++|||||+|.+.++|.+|++.|||..+.|++|.|..|.
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            56799999999999999999999999999999865    69999999999999999999999999999999999883

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

Probab=99.43  E-value=1e-13  Score=126.79  Aligned_cols=82  Identities=20%  Similarity=0.260  Sum_probs=68.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCc----e
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC----S  534 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~----~  534 (967)
                      .....||||+|||+.+|+++|+++|++||.+. +..|   ..+.+..++.++|||||+|.+.++|..||+ |||.    .
T Consensus         6 ~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~-v~~v---~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~   81 (95)
T 2lkz_A            6 HHHMDTIILRNIAPHTVVDSIMTALSPYASLA-VNNI---RLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLK   81 (95)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHSTTTCCCC-GGGE---ECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEE
T ss_pred             CCccCEEEEeCCCCcCCHHHHHHHHHhhCCcc-EEEE---EEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCce
Confidence            35567999999999999999999999999421 1122   244667789999999999999999999999 9996    5


Q ss_pred             eecceeEEeCC
Q 002093          535 FSGSILKIKRP  545 (967)
Q Consensus       535 l~Gr~l~V~rp  545 (967)
                      +.|++|.|.++
T Consensus        82 i~Gr~i~V~~A   92 (95)
T 2lkz_A           82 IDGKTIGVDFA   92 (95)
T ss_dssp             ETTEEEEEEEC
T ss_pred             ECCEEEEEEEc
Confidence            89999999854

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.43  E-value=3.9e-13  Score=121.99  Aligned_cols=83  Identities=16%  Similarity=0.347  Sum_probs=76.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            357899999999999999999999999999999999875  456899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        83 ~~~~~   87 (95)
T 2dnz_A           83 TERLD   87 (95)
T ss_dssp             SCCCC
T ss_pred             ccccC
Confidence            76543

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.43  E-value=3.3e-13  Score=123.02  Aligned_cols=81  Identities=19%  Similarity=0.394  Sum_probs=74.9

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.+
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   81 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSN   81 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCC
Confidence            5789999999999999999999999999999998875  44699999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        82 ~~~   84 (96)
T 2x1f_A           82 SDI   84 (96)
T ss_dssp             SSG
T ss_pred             CCC
Confidence            543

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=2.7e-13  Score=125.09  Aligned_cols=84  Identities=12%  Similarity=0.226  Sum_probs=77.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            34578999999999999999999999999999999998855679999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        92 ~~~~   95 (103)
T 2d9p_A           92 RKEE   95 (103)
T ss_dssp             SCCC
T ss_pred             cccc
Confidence            7544

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=3.3e-13  Score=122.70  Aligned_cols=82  Identities=22%  Similarity=0.351  Sum_probs=75.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEE-EEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAY-HFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v-~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +.++|||+|||..+++++|+++|++||.|..| .|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            46899999999999999999999999999999 998874  446999999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        84 ~~~~~   88 (96)
T 1x5t_A           84 FKKDS   88 (96)
T ss_dssp             CCCCC
T ss_pred             cccCC
Confidence            76554

>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

Probab=99.43  E-value=5.7e-14  Score=126.65  Aligned_cols=80  Identities=15%  Similarity=0.155  Sum_probs=68.5

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcC--CeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G--~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+|||+|||..+++++|+++|++||  .|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            4799999999999999999999999  99999999884  4568999999999999999999999999999999999987


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        82 ~~~~   85 (90)
T 3p5t_L           82 KLEH   85 (90)
T ss_dssp             ----
T ss_pred             CCcc
Confidence            6543

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=4.2e-13  Score=123.54  Aligned_cols=84  Identities=17%  Similarity=0.314  Sum_probs=76.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|.|+.|.|.+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   88 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   88 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            3457899999999999999999999999999999998874  34689999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        89 a~~~~~   94 (102)
T 1x5s_A           89 AGKSSD   94 (102)
T ss_dssp             EECCCC
T ss_pred             CCCCCC
Confidence            976544

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.43  E-value=3.9e-13  Score=123.35  Aligned_cols=82  Identities=20%  Similarity=0.369  Sum_probs=75.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   94 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISN   94 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            456899999999999999999999999999999999886 3457999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        95 ~~~   97 (100)
T 2do4_A           95 SGP   97 (100)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            654

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=3.5e-13  Score=124.07  Aligned_cols=84  Identities=15%  Similarity=0.285  Sum_probs=76.5

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|.|+.|.|.+
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   88 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEe
Confidence            3457899999999999999999999999999999998874  34699999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        89 a~~~~~   94 (102)
T 2cqb_A           89 AKPMRI   94 (102)
T ss_dssp             CCCCCC
T ss_pred             CCCCCC
Confidence            977554

>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

Probab=99.43  E-value=5.2e-13  Score=123.59  Aligned_cols=84  Identities=17%  Similarity=0.377  Sum_probs=76.8

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           12 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            3457899999999999999999999999999999998874  44689999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        92 a~~~~~   97 (105)
T 1x5u_A           92 ASAHNK   97 (105)
T ss_dssp             TTTTSC
T ss_pred             CCCCCc
Confidence            977554

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.42  E-value=1.4e-13  Score=129.21  Aligned_cols=79  Identities=16%  Similarity=0.147  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|++ |||..|.|+.
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v------~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~   77 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEV------EILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNI   77 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEE------EEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            456799999999999999999999999964433      133566678999999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|...
T Consensus        78 i~V~~a   83 (110)
T 3s8s_A           78 IHAQLD   83 (110)
T ss_dssp             CEEEEC
T ss_pred             EEEEEC
Confidence            999853

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.42  E-value=5.5e-13  Score=122.11  Aligned_cols=82  Identities=20%  Similarity=0.304  Sum_probs=75.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++ |||..|.|+.|.|.++
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEEC
Confidence            456899999999999999999999999999999998875  4469999999999999999998 9999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        87 ~~~~~   91 (99)
T 2dgs_A           87 EPRDS   91 (99)
T ss_dssp             CCCCC
T ss_pred             CCCcc
Confidence            76543

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=3.4e-13  Score=124.48  Aligned_cols=84  Identities=19%  Similarity=0.278  Sum_probs=76.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            3457899999999999999999999999999999999874  34689999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        92 a~~~~~   97 (103)
T 2cq0_A           92 AKPSTN   97 (103)
T ss_dssp             SSCCCC
T ss_pred             CCCCCC
Confidence            977544

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=4.7e-13  Score=121.35  Aligned_cols=81  Identities=15%  Similarity=0.238  Sum_probs=74.0

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +...++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.+
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG   91 (95)
T ss_dssp             CCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            34568999999999999999999999999999999998754  4589999999999999999999999999999999998


Q ss_pred             ccc
Q 002093          649 AVL  651 (967)
Q Consensus       649 a~~  651 (967)
                      +..
T Consensus        92 a~~   94 (95)
T 2cqc_A           92 PSS   94 (95)
T ss_dssp             CSC
T ss_pred             cCC
Confidence            853

>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}

Probab=99.41  E-value=7.3e-13  Score=125.44  Aligned_cols=83  Identities=25%  Similarity=0.430  Sum_probs=76.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|++.|||..|.|+.|.|.++.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            456899999999999999999999999999999999885 4468999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        85 ~~~~   88 (116)
T 2fy1_A           85 KPSF   88 (116)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            6543

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.41  E-value=4.7e-13  Score=121.19  Aligned_cols=79  Identities=18%  Similarity=0.331  Sum_probs=73.3

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +...++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|.|+.|.|.+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            44578999999999999999999999999999999988753  4689999999999999999999999999999999998


Q ss_pred             c
Q 002093          649 A  649 (967)
Q Consensus       649 a  649 (967)
                      |
T Consensus        93 a   93 (94)
T 2e5h_A           93 A   93 (94)
T ss_dssp             C
T ss_pred             c
Confidence            7

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.41  E-value=2e-13  Score=125.71  Aligned_cols=78  Identities=15%  Similarity=0.188  Sum_probs=73.2

Q ss_pred             CceEEEcCCCc------ccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCC-eEE
Q 002093          574 PHKIFIGGISR------TLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-QVL  644 (967)
Q Consensus       574 ~~~L~V~nLp~------~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~G-r~I  644 (967)
                      .++|||+|||.      .+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..|||..|.| +.|
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l   85 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRL   85 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBC
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEE
Confidence            47899999999      999999999999999999999998864  469999999999999999999999999999 999


Q ss_pred             EEEEccc
Q 002093          645 TAVQAVL  651 (967)
Q Consensus       645 ~V~~a~~  651 (967)
                      .|.++.+
T Consensus        86 ~V~~a~~   92 (100)
T 3ns6_A           86 FLYTMKD   92 (100)
T ss_dssp             EEEESHH
T ss_pred             EEEECch
Confidence            9999865

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=4.3e-13  Score=124.56  Aligned_cols=75  Identities=21%  Similarity=0.305  Sum_probs=64.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc--Cceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln--g~~l~  536 (967)
                      ..+.++|||+|||+.+|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|++ |+  +..|.
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG~------------V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~   80 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFGK------------VTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLR   80 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHCC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------EEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            456789999999999999999999999994            4455555569999999999999999999 76  47899


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|.|.+.+
T Consensus        81 Gr~l~V~~A~   90 (105)
T 1sjq_A           81 GQPIYIQFSN   90 (105)
T ss_dssp             TEECCBCCCS
T ss_pred             CEEEEEEEcC
Confidence            9999998643

>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

Probab=99.41  E-value=6.1e-13  Score=119.09  Aligned_cols=78  Identities=13%  Similarity=0.291  Sum_probs=72.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccC
Confidence            4789999999999999999999999999999999874  456999999999999999999 8999999999999999865


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        85 ~   85 (89)
T 3ucg_A           85 N   85 (89)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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

Probab=99.41  E-value=7.9e-13  Score=124.58  Aligned_cols=83  Identities=14%  Similarity=0.318  Sum_probs=75.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  102 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK  102 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            345899999999999999999999999999999999885  345899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus       103 ~~~~~  107 (115)
T 2cpz_A          103 RSKND  107 (115)
T ss_dssp             CCSCC
T ss_pred             CCCCc
Confidence            76544

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

Probab=99.41  E-value=2.9e-13  Score=124.44  Aligned_cols=98  Identities=23%  Similarity=0.270  Sum_probs=73.1

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecC-CCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~-skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ++|||+|||+++|+++|+++|+.||.+..            +.+.. ++|||||+|.+.++|..|+. |||..|.|+.|.
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~------------v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   68 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRT------------VWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVR   68 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSE------------EEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEE------------EEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEE
Confidence            48999999999999999999999995332            22222 69999999999999999999 999999999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCC
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGIS  583 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp  583 (967)
                      |.+.........         .+ ..........+|||+||+
T Consensus        69 V~~a~~~~~~~~---------~~-~~~~~~~~~~~ifvg~L~  100 (101)
T 2hvz_A           69 VELSTGMPRRSR---------FD-RPPARRKLLEVLFNGPLE  100 (101)
T ss_dssp             EEESSSCCCSSC---------CC-SCCCSCCCCSCCCSCCCC
T ss_pred             EEEccCCCCccc---------CC-CCCccccCCCceecCCCC
Confidence            986543221100         00 001112336789999996

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=4.9e-13  Score=123.99  Aligned_cols=81  Identities=19%  Similarity=0.371  Sum_probs=74.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  101 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            457899999999999999999999999999999998854  458999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus       102 ~~~  104 (106)
T 1p27_B          102 VRG  104 (106)
T ss_dssp             ESS
T ss_pred             CCC
Confidence            654

>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

Probab=99.40  E-value=9.8e-13  Score=122.74  Aligned_cols=83  Identities=17%  Similarity=0.362  Sum_probs=74.9

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|..+ ..++|||||+|.+.++|.+|++.|||..|.|+.|.|.++.
T Consensus        19 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC-CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            345689999999999999999999999999999998665 3469999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        98 ~~~~  101 (109)
T 1x4a_A           98 SGRG  101 (109)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            6543

>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

Probab=99.40  E-value=6e-13  Score=123.72  Aligned_cols=89  Identities=20%  Similarity=0.250  Sum_probs=73.8

Q ss_pred             CeEEEccccC-CCCCCCC--------CCh----HHHHHHHHHHHHHH-hcCCCeEEEEEecCCCCCcceeEEEEeCCHHH
Q 002093          679 TEVLKLKNVF-NPEGFSS--------LSE----LEVEEVLEDVRLEC-ARFGSVKSVNVVKYGDSNISTIQACEGNENTA  744 (967)
Q Consensus       679 s~vl~L~Nl~-~~~~L~~--------i~~----~~~eei~eDIr~~f-~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~  744 (967)
                      +++|+|.||+ +|.....        +++    +.|.++.+||+++| ++||.|+.|.|+++..+.++|||||+|.+.++
T Consensus         1 s~~~~l~nm~~~p~~~~~~~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~   80 (104)
T 1jmt_A            1 SQTIALLNIYRNPQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREED   80 (104)
T ss_dssp             CCEEEEEEEEECCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHH
T ss_pred             CcEEEEeeccCCccccccccCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHH
Confidence            4789999999 4544310        011    34667889999999 99999999999998888899999999999999


Q ss_pred             HHHHHHHhCCCccCCCcceeEEe
Q 002093          745 SAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       745 A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      |.+|+..|||+.|+|+.+.+..+
T Consensus        81 A~~A~~~lng~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           81 AEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHHHCCCEECCEEEEEEEc
Confidence            99999999999999999987653

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

Probab=99.40  E-value=5.3e-13  Score=123.96  Aligned_cols=79  Identities=14%  Similarity=0.248  Sum_probs=73.0

Q ss_pred             CCceEEEcCCCccc------CHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCe-EEE
Q 002093          573 SPHKIFIGGISRTL------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ-VLT  645 (967)
Q Consensus       573 ~~~~L~V~nLp~~~------teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr-~I~  645 (967)
                      ..++|||+|||..+      ++++|+++|++||.|..|.|++..+.++|||||+|.+.++|.+|+..|||..|.|+ .|.
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~   93 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFR   93 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEE
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEE
Confidence            35799999999999      78999999999999999999866667899999999999999999999999999999 999


Q ss_pred             EEEccc
Q 002093          646 AVQAVL  651 (967)
Q Consensus       646 V~~a~~  651 (967)
                      |.++..
T Consensus        94 V~~a~~   99 (105)
T 2nlw_A           94 VNLFTD   99 (105)
T ss_dssp             EECSCC
T ss_pred             EEEcch
Confidence            999854

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.40  E-value=6e-13  Score=121.94  Aligned_cols=79  Identities=16%  Similarity=0.281  Sum_probs=73.1

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeE--------EEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccC
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVG  640 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--------v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~  640 (967)
                      +...++|||+|||..+++++|+++|++||.|..        |.|+.+..  .++|||||+|.+.++|.+|++.|||..|.
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            445789999999999999999999999999999        99988753  45899999999999999999999999999


Q ss_pred             CeEEEEEEc
Q 002093          641 GQVLTAVQA  649 (967)
Q Consensus       641 Gr~I~V~~a  649 (967)
                      |+.|.|.+|
T Consensus        90 g~~l~V~~A   98 (99)
T 2la6_A           90 GNPIKVSFA   98 (99)
T ss_dssp             SSBCEEEEC
T ss_pred             CcEEEEEec
Confidence            999999987

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

Probab=99.40  E-value=3.6e-13  Score=127.45  Aligned_cols=79  Identities=19%  Similarity=0.167  Sum_probs=67.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~------i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  110 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAK------VFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTK  110 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEE------ECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45678999999999999999999999999644332      22344568889999999999999999999 999999999


Q ss_pred             eeEEeC
Q 002093          539 ILKIKR  544 (967)
Q Consensus       539 ~l~V~r  544 (967)
                      .|+|.+
T Consensus       111 ~l~V~~  116 (118)
T 2khc_A          111 RLKVQL  116 (118)
T ss_dssp             ECCEEE
T ss_pred             EEEEEe
Confidence            999974

>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

Probab=99.40  E-value=1.3e-13  Score=124.33  Aligned_cols=77  Identities=13%  Similarity=0.065  Sum_probs=64.0

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhh--hhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG--~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      .+|||+|||+++|+++|+++|+.||  .+..+.      .+.+..++.++|||||+|.+.++|.+|++ |||..|.|+.|
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~------i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i   75 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIK------FFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNP   75 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEE------EEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEE------EEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEE
Confidence            4799999999999999999999999  544331      33455688999999999999999999998 99999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      +|....
T Consensus        76 ~V~~~~   81 (90)
T 3p5t_L           76 VVTPSN   81 (90)
T ss_dssp             EECCC-
T ss_pred             EEEECC
Confidence            998543

>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

Probab=99.40  E-value=8.2e-13  Score=122.23  Aligned_cols=83  Identities=20%  Similarity=0.331  Sum_probs=75.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCC---eEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG---QVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G---r~I~V~  647 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|   +.|.|.
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~   92 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVK   92 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEE
Confidence            357899999999999999999999999999999999885 3458999999999999999999999999988   999999


Q ss_pred             EcccCCC
Q 002093          648 QAVLDGS  654 (967)
Q Consensus       648 ~a~~~~~  654 (967)
                      ++.+...
T Consensus        93 ~a~~~~~   99 (105)
T 2dnh_A           93 FADTDKE   99 (105)
T ss_dssp             ESCSSCC
T ss_pred             ECccCcc
Confidence            9976543

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

Probab=99.40  E-value=4.5e-13  Score=123.19  Aligned_cols=77  Identities=19%  Similarity=0.329  Sum_probs=72.5

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ++|||+|||..+++++|+++|++||.|..|.++.+   ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN---PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS---SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC---CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            47999999999999999999999999999999887   799999999999999999999999999999999999977553

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.40  E-value=7e-13  Score=121.88  Aligned_cols=79  Identities=23%  Similarity=0.318  Sum_probs=70.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+++|+++|+++|..||.+..       ..+.+..++.++|||||+|.+.++|.+||+|||..|.|+.|
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-------~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l   87 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELFAKND-------LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEI   87 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-------CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-------EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEE
Confidence            45679999999999999999999999997544       14577788999999999999999999999999999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      .|.++.
T Consensus        88 ~V~~a~   93 (101)
T 1fj7_A           88 KLEKPK   93 (101)
T ss_dssp             EEECCS
T ss_pred             EEEEcC
Confidence            998643

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=5.1e-13  Score=122.27  Aligned_cols=82  Identities=15%  Similarity=0.282  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCee-EEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeE----E
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV----L  644 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~-~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~----I  644 (967)
                      ....+|||+|||..+++++|+++|++||.|. .|.|+.+..  .++|||||+|.+.++|.+|++.|||..|.|+.    |
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l   86 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRF   86 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEEC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeE
Confidence            3578999999999999999999999999999 999998853  45899999999999999999999999999999    9


Q ss_pred             EEEEcccCC
Q 002093          645 TAVQAVLDG  653 (967)
Q Consensus       645 ~V~~a~~~~  653 (967)
                      .|.++.+..
T Consensus        87 ~v~~a~~~~   95 (99)
T 2div_A           87 KLNYATYSG   95 (99)
T ss_dssp             CEEETTCCS
T ss_pred             EEeecCCCC
Confidence            999997654

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.40  E-value=7.8e-13  Score=128.86  Aligned_cols=82  Identities=20%  Similarity=0.319  Sum_probs=69.5

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .....++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|+. |||..|.|
T Consensus        38 ~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  111 (139)
T 1u6f_A           38 EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVK------IVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILN  111 (139)
T ss_dssp             CTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEE------EEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            345678999999999999999999999999643321      23444567889999999999999999999 99999999


Q ss_pred             ceeEEeCCC
Q 002093          538 SILKIKRPK  546 (967)
Q Consensus       538 r~l~V~rp~  546 (967)
                      +.|+|.+..
T Consensus       112 ~~l~v~~a~  120 (139)
T 1u6f_A          112 KRLKVALAA  120 (139)
T ss_dssp             CEEEEEESS
T ss_pred             eEEEEEECC
Confidence            999998644

>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

Probab=99.40  E-value=9.7e-13  Score=122.89  Aligned_cols=83  Identities=28%  Similarity=0.446  Sum_probs=76.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhC------CCccCCeE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLN------GLKVGGQV  643 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~Ln------G~~~~Gr~  643 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..||      |..|+|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~   92 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQ   92 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEE
Confidence            4568999999999999999999999999999999998854  469999999999999999999999      99999999


Q ss_pred             EEEEEcccCCC
Q 002093          644 LTAVQAVLDGS  654 (967)
Q Consensus       644 I~V~~a~~~~~  654 (967)
                      |.|.++.+...
T Consensus        93 l~v~~a~~~~~  103 (111)
T 1x4h_A           93 LKVDLAVTRDE  103 (111)
T ss_dssp             EEEECCCCCCC
T ss_pred             EEEEECCCCcc
Confidence            99999976543

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.40  E-value=6.6e-13  Score=122.17  Aligned_cols=77  Identities=16%  Similarity=0.195  Sum_probs=70.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCc--cCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLK--VGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~--~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||..+|+++|+++|++||.|..|.+++    ++|||||+|.+.++|.+|+..|+|..  |.|++|.|.++
T Consensus        19 ~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~----~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S   94 (100)
T 3r27_A           19 PASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP----KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYS   94 (100)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc----CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEec
Confidence            3568999999999999999999999999999999875    48999999999999999999999875  78999999998


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      ...
T Consensus        95 ~~k   97 (100)
T 3r27_A           95 TSQ   97 (100)
T ss_dssp             SCS
T ss_pred             ccc
Confidence            653

>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*

Probab=99.40  E-value=3.9e-13  Score=119.28  Aligned_cols=78  Identities=27%  Similarity=0.324  Sum_probs=67.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   78 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ------IPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRT   78 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------CCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEE------EEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            4578999999999999999999999999643321      23455678889999999999999999998 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|.+
T Consensus        79 l~v~~   83 (85)
T 3mdf_A           79 IRVNL   83 (85)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99984

>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*

Probab=99.39  E-value=8e-13  Score=123.44  Aligned_cols=81  Identities=21%  Similarity=0.400  Sum_probs=74.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  104 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  104 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEcc
Confidence            45789999999999999999999999999999998874  3468999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus       105 ~~~  107 (110)
T 1oo0_B          105 VKG  107 (110)
T ss_dssp             ESS
T ss_pred             cCC
Confidence            654

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=1.4e-13  Score=127.74  Aligned_cols=82  Identities=20%  Similarity=0.199  Sum_probs=69.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|++||.+..+.      .+.+.. +.++|||||+|.+.++|..||.+||..|.|+.|
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~------i~~d~~-g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l   81 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQ------MRRTLH-KAFKGSIFVVFDSIESAKKFVETPGQKYKETDL   81 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEE------EECCCT-TSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEE------EEECCC-CCCccEEEEEECCHHHHHHHHHcCCCEECCEEE
Confidence            3457999999999999999999999999644432      223333 889999999999999999999999999999999


Q ss_pred             EEeCCCccc
Q 002093          541 KIKRPKEFV  549 (967)
Q Consensus       541 ~V~rp~~~~  549 (967)
                      .|.+..+|.
T Consensus        82 ~V~~~~~~~   90 (103)
T 1s79_A           82 LILFKDDYF   90 (103)
T ss_dssp             EEEEHHHHH
T ss_pred             EEEEchHHH
Confidence            999766654

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.39  E-value=5.8e-13  Score=120.81  Aligned_cols=79  Identities=18%  Similarity=0.379  Sum_probs=73.0

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.|+.+.. .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            3468999999999999999999999999999999998753 458999999999999999999999999999999999874

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.39  E-value=7.8e-13  Score=123.65  Aligned_cols=82  Identities=18%  Similarity=0.453  Sum_probs=74.9

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|+|+.|.|.+
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  102 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGH  102 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            34568999999999999999999999999999999998854  3589999999999999999999999999999999999


Q ss_pred             cccC
Q 002093          649 AVLD  652 (967)
Q Consensus       649 a~~~  652 (967)
                      +.+.
T Consensus       103 a~~k  106 (108)
T 2jrs_A          103 VTER  106 (108)
T ss_dssp             SCSS
T ss_pred             cccC
Confidence            8653

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.38  E-value=3.8e-13  Score=126.28  Aligned_cols=82  Identities=21%  Similarity=0.323  Sum_probs=74.9

Q ss_pred             CCCceEEEcCCCcccCHHHHH---HHHHhcCCeeEEEEeecCC-----CCCCEEEEeecCcchHHHHHHHhCCCccCCeE
Q 002093          572 DSPHKIFIGGISRTLSSKMVM---EIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  643 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~---e~Fsk~G~V~~v~l~~d~~-----~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~  643 (967)
                      ...++|||+|||..+++++|+   ++|++||.|..|.|+.+..     .++|||||+|.+.++|.+|++.|||..|.|+.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~   92 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   92 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEE
Confidence            346899999999999999999   9999999999999988864     34699999999999999999999999999999


Q ss_pred             EEEEEcccCC
Q 002093          644 LTAVQAVLDG  653 (967)
Q Consensus       644 I~V~~a~~~~  653 (967)
                      |.|.+|.+..
T Consensus        93 l~V~~a~~k~  102 (111)
T 2cpi_A           93 LKASLGTTKY  102 (111)
T ss_dssp             EEEESCCCCS
T ss_pred             EEEEeccccc
Confidence            9999997654

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.38  E-value=6.9e-13  Score=120.58  Aligned_cols=80  Identities=18%  Similarity=0.187  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.     ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~-----~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   77 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTP-----KIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRP   77 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCC-----EECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE-----EEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            3567999999999999999999999999644430     122344678899999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        78 l~v~~a   83 (96)
T 1x5t_A           78 ITVSYA   83 (96)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            999854

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.38  E-value=6.8e-13  Score=122.07  Aligned_cols=73  Identities=22%  Similarity=0.167  Sum_probs=64.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce--ee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS--FS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~--l~  536 (967)
                      ..++++|||+|||+.+|+++|+++|++||.            |.++.+.+++|||||+|.+.++|..|+. ||+..  |.
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~------------V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~   85 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGP------------ISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIA   85 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCC------------EEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeC
Confidence            356789999999999999999999999994            4455555689999999999999999999 99865  78


Q ss_pred             cceeEEeC
Q 002093          537 GSILKIKR  544 (967)
Q Consensus       537 Gr~l~V~r  544 (967)
                      |++|.|..
T Consensus        86 Gr~i~V~~   93 (100)
T 3r27_A           86 GHPAFVNY   93 (100)
T ss_dssp             TEEEEEEE
T ss_pred             CcEEEEEe
Confidence            99999984

>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

Probab=99.38  E-value=4.3e-13  Score=124.18  Aligned_cols=78  Identities=15%  Similarity=0.080  Sum_probs=70.9

Q ss_pred             CCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCC--ccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL--KVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~--~~~Gr~I~V~~  648 (967)
                      .+..+|||+|||. .+++++|+++|++||.|..|.|+++    +|||||+|.+.++|..|+..|||.  .|.|++|.|.+
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~   88 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHL   88 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEE
Confidence            3568999999999 9999999999999999999999875    799999999999999999999864  59999999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      |....
T Consensus        89 a~~~~   93 (102)
T 1x4d_A           89 SQKYK   93 (102)
T ss_dssp             ECCCT
T ss_pred             CCCCC
Confidence            97543

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.38  E-value=5.4e-13  Score=120.93  Aligned_cols=79  Identities=27%  Similarity=0.360  Sum_probs=67.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|+. |||..|.|++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   86 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVS------IVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRR   86 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEE------EEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEE------EEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            4567999999999999999999999999643321      23444567889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.++
T Consensus        87 l~v~~a   92 (95)
T 2cqc_A           87 IRVSGP   92 (95)
T ss_dssp             EEEECC
T ss_pred             EEEEec
Confidence            999864

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.38  E-value=8.3e-13  Score=117.23  Aligned_cols=73  Identities=21%  Similarity=0.250  Sum_probs=65.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c-cCceeec
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSG  537 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l-ng~~l~G  537 (967)
                      ....++|||+|||..+|+++|+++|+.||.            |..+.+..++|||||+|.+.++|..|+. | ||..|.|
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~------------i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g   76 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFGE------------IRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNG   76 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTSC------------EEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETT
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCCC------------EeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECC
Confidence            456789999999999999999999999993            4555555679999999999999999999 8 9999999


Q ss_pred             ceeEEeC
Q 002093          538 SILKIKR  544 (967)
Q Consensus       538 r~l~V~r  544 (967)
                      ++|+|.+
T Consensus        77 ~~l~v~~   83 (85)
T 2ytc_A           77 RRLNVKW   83 (85)
T ss_dssp             EECCEEE
T ss_pred             CEEEEEe
Confidence            9999985

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.38  E-value=1.4e-12  Score=117.25  Aligned_cols=77  Identities=17%  Similarity=0.294  Sum_probs=71.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.+.      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN   79 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCC
Confidence            457899999999999999999999999999999986      78999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        80 ~~~   82 (90)
T 2dnq_A           80 KSK   82 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

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

Probab=99.38  E-value=7.7e-13  Score=122.20  Aligned_cols=83  Identities=14%  Similarity=0.341  Sum_probs=75.6

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHh-cCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCc-cCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCA-FGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLK-VGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk-~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~-~~Gr~I~V~~  648 (967)
                      ....+|||+|||..+++++|+++|++ ||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||.. |+|+.|.|.+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~   86 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSV   86 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCB
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEE
Confidence            35689999999999999999999999 9999999999885 3458999999999999999999999999 9999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        87 a~~~~~   92 (104)
T 2dhg_A           87 AIPKAS   92 (104)
T ss_dssp             CCCCCS
T ss_pred             ccCCCc
Confidence            976544

>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

Probab=99.38  E-value=8.4e-13  Score=122.59  Aligned_cols=80  Identities=16%  Similarity=0.260  Sum_probs=73.5

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        26 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  105 (107)
T 3ulh_A           26 VETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLV  105 (107)
T ss_dssp             CCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            3457899999999999999999999999999999999885 345899999999999999999999999999999999987


Q ss_pred             c
Q 002093          650 V  650 (967)
Q Consensus       650 ~  650 (967)
                      .
T Consensus       106 ~  106 (107)
T 3ulh_A          106 T  106 (107)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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

Probab=99.38  E-value=6.9e-13  Score=122.68  Aligned_cols=81  Identities=15%  Similarity=0.240  Sum_probs=74.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....+|||+|||..+++++|+++|+.|| |..|.|+.+.   +.++|||||+|.+.++|.+|| .|||..|.|+.|.|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~   90 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDV   90 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEE
Confidence            3568999999999999999999999999 9999998885   446999999999999999999 8999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        91 a~~~~~   96 (104)
T 1wi8_A           91 ADQAQD   96 (104)
T ss_dssp             CCCCCC
T ss_pred             ccCCCC
Confidence            976543

>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

Probab=99.38  E-value=7.3e-13  Score=124.83  Aligned_cols=80  Identities=19%  Similarity=0.203  Sum_probs=68.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+.
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   96 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAK------VFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKR   96 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEE------EEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            4567999999999999999999999999644331      23444578899999999999999999998 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+..
T Consensus        97 l~V~~a~  103 (115)
T 2cpz_A           97 LKVQLKR  103 (115)
T ss_dssp             CEEECCC
T ss_pred             EEEEEcC
Confidence            9998644

>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

Probab=99.38  E-value=9e-13  Score=125.31  Aligned_cols=79  Identities=14%  Similarity=0.095  Sum_probs=72.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC--CCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln--G~~~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||+.+++++|+++|++||.|..|.|+.+    +|||||+|.+.++|.+|++.|+  |..|.|++|.|.++
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a  104 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFS  104 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEc
Confidence            35689999999999999999999999999999999876    8999999999999999999887  47899999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus       105 ~~k~~  109 (119)
T 2ad9_A          105 NHKEL  109 (119)
T ss_dssp             SSSSC
T ss_pred             cCCCC
Confidence            76543

>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

Probab=99.38  E-value=1.1e-12  Score=121.52  Aligned_cols=84  Identities=23%  Similarity=0.343  Sum_probs=75.9

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCcc---CCeEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLT  645 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~---~Gr~I~  645 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..+   .|+.|.
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            3456899999999999999999999999999999998875  44689999999999999999999999887   899999


Q ss_pred             EEEcccCCC
Q 002093          646 AVQAVLDGS  654 (967)
Q Consensus       646 V~~a~~~~~  654 (967)
                      |.++.+...
T Consensus        90 v~~a~~~~~   98 (106)
T 2dgp_A           90 VKPADSESR   98 (106)
T ss_dssp             EEECCCCSC
T ss_pred             EEECCcccc
Confidence            999976543

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.38  E-value=4.6e-13  Score=122.76  Aligned_cols=84  Identities=19%  Similarity=0.187  Sum_probs=67.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcc--cccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~--~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .+.++|||+|||..+|+++|+++|+.||.+....  ..+....+.+..++.++|||||+|.+.++|..|+. |||..|.|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g   90 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG   90 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            4567999999999999999999999999643300  00001123444568889999999999999999999 99999999


Q ss_pred             ceeEEeC
Q 002093          538 SILKIKR  544 (967)
Q Consensus       538 r~l~V~r  544 (967)
                      +.|+|.+
T Consensus        91 ~~l~V~~   97 (99)
T 2la6_A           91 NPIKVSF   97 (99)
T ss_dssp             SBCEEEE
T ss_pred             cEEEEEe
Confidence            9999984

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

Probab=99.38  E-value=2.8e-13  Score=119.59  Aligned_cols=72  Identities=15%  Similarity=0.330  Sum_probs=67.1

Q ss_pred             ceEEEcCCCccc------CHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCe-EEEE
Q 002093          575 HKIFIGGISRTL------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ-VLTA  646 (967)
Q Consensus       575 ~~L~V~nLp~~~------teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr-~I~V  646 (967)
                      ++|||+|||..+      ++++|+++|++||.|..|.|+...+.++|||||+|.+.++|.+|+..|||..|+|+ +|.|
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            589999999999      78999999999999999999866667899999999999999999999999999999 8876

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.38  E-value=2.1e-12  Score=123.44  Aligned_cols=84  Identities=14%  Similarity=0.226  Sum_probs=76.4

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|
T Consensus        32 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  111 (124)
T 2kt5_A           32 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  111 (124)
T ss_dssp             CSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEe
Confidence            3456899999999999999999999999999999998875 346899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus       112 ~~~~~  116 (124)
T 2kt5_A          112 ASQID  116 (124)
T ss_dssp             CCTTC
T ss_pred             CCCCC
Confidence            76543

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.38  E-value=6.4e-13  Score=121.05  Aligned_cols=80  Identities=21%  Similarity=0.358  Sum_probs=67.8

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   74 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLK------MMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL   74 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCEEEEE------EEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            357999999999999999999999999643321      22444568889999999999999999998 99999999999


Q ss_pred             EEeCCCc
Q 002093          541 KIKRPKE  547 (967)
Q Consensus       541 ~V~rp~~  547 (967)
                      .|.+...
T Consensus        75 ~V~~a~~   81 (96)
T 2x1f_A           75 KCGYSSN   81 (96)
T ss_dssp             EEEECSC
T ss_pred             EEEEcCC
Confidence            9986443

>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*

Probab=99.38  E-value=7.6e-13  Score=126.71  Aligned_cols=82  Identities=18%  Similarity=0.370  Sum_probs=75.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  100 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  100 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEec
Confidence            46799999999999999999999999999999998884  4469999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus       101 ~~~~  104 (126)
T 3ex7_B          101 VRGP  104 (126)
T ss_dssp             ESSS
T ss_pred             CCCC
Confidence            7554

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.38  E-value=1.9e-12  Score=121.54  Aligned_cols=83  Identities=11%  Similarity=0.119  Sum_probs=75.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.. .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            3468999999999999999999999999999999988753 358999999999999999999999999999999999986


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      ....
T Consensus        93 ~~~~   96 (114)
T 2do0_A           93 RALP   96 (114)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            5443

>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

Probab=99.38  E-value=7.9e-13  Score=122.32  Aligned_cols=80  Identities=24%  Similarity=0.248  Sum_probs=68.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (105)
T 1x5u_A           12 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTH------MPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   85 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            35578999999999999999999999999644332      23445578899999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|.|.+.
T Consensus        86 ~l~v~~a   92 (105)
T 1x5u_A           86 PIRVNKA   92 (105)
T ss_dssp             BCEEEET
T ss_pred             EEEEEEC
Confidence            9999853

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.38  E-value=4.1e-13  Score=134.03  Aligned_cols=79  Identities=11%  Similarity=0.098  Sum_probs=67.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhh--hhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG--~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ...++|||+|||+++|+++|+++|+.||  .+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|
T Consensus        53 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v------~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~G  126 (156)
T 3n9u_C           53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVEL------KFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNG  126 (156)
T ss_dssp             ---CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEE------EEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            3568999999999999999999999999  53332      133556689999999999999999999999 99999999


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      +.|.|..+
T Consensus       127 r~l~V~~a  134 (156)
T 3n9u_C          127 EKVDVRPA  134 (156)
T ss_dssp             EECEEEEC
T ss_pred             eEeEEEEc
Confidence            99999854

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.38  E-value=4.9e-13  Score=122.94  Aligned_cols=73  Identities=23%  Similarity=0.356  Sum_probs=65.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||.++|+++|+++|+.||.            |.++.+..++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~------------i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   92 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFGF------------ILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRN   92 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTSC------------CSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCCC------------EEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            44689999999999999999999999994            3455555789999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.++
T Consensus        93 l~V~~a   98 (101)
T 2la4_A           93 LRTGWG   98 (101)
T ss_dssp             CCCCBC
T ss_pred             EEEEec
Confidence            999854

>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

Probab=99.38  E-value=1.5e-12  Score=121.49  Aligned_cols=79  Identities=16%  Similarity=0.349  Sum_probs=73.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+    +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   98 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   98 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCC
Confidence            35689999999999999999999999999999999876    89999999999999999999999999999999999977


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        99 ~~~  101 (109)
T 1x4g_A           99 SPD  101 (109)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            554

>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

Probab=99.37  E-value=1.3e-12  Score=121.87  Aligned_cols=78  Identities=12%  Similarity=0.101  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC-----eEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-----QVLTA  646 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G-----r~I~V  646 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+     |||||+|.+.++|.+||+.|||..|.|     +.|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V   87 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRV   87 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEE
Confidence            34689999999999999999999999999999999876     999999999999999999999999999     99999


Q ss_pred             EEcccCCC
Q 002093          647 VQAVLDGS  654 (967)
Q Consensus       647 ~~a~~~~~  654 (967)
                      .++.+...
T Consensus        88 ~~a~~~~~   95 (108)
T 1x4c_A           88 KVDGPRSP   95 (108)
T ss_dssp             EESSCCSC
T ss_pred             EeCCCCCC
Confidence            99977543

>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

Probab=99.37  E-value=1.4e-12  Score=116.35  Aligned_cols=77  Identities=21%  Similarity=0.406  Sum_probs=70.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++ ++|..|+|+.|.|.+|
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEEeC
Confidence            4578999999999999999999999999999999998853  458999999999999999996 6888999999999875

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.37  E-value=4.7e-13  Score=116.01  Aligned_cols=74  Identities=12%  Similarity=0.219  Sum_probs=64.6

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|++|||..|.|++|.|.+
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~   74 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAM------LMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEEC------CCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEEC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEE------EEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEe
Confidence            599999999999999999999999644332      23445578899999999999999999999999999999999984

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.37  E-value=1.1e-12  Score=123.19  Aligned_cols=88  Identities=22%  Similarity=0.214  Sum_probs=70.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcc--cccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~--~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ....++|||+|||+.+|+++|+++|..||.+....  ..+....+.+..++.++|||||+|.+.++|..||. |||..|.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   91 (113)
T 2cpe_A           12 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ   91 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccC
Confidence            45678999999999999999999999999644100  00011133455678899999999999999999999 9999999


Q ss_pred             cceeEEeCCCc
Q 002093          537 GSILKIKRPKE  547 (967)
Q Consensus       537 Gr~l~V~rp~~  547 (967)
                      |+.|+|.++..
T Consensus        92 g~~l~V~~a~~  102 (113)
T 2cpe_A           92 GSKLKVSLARK  102 (113)
T ss_dssp             TEECEEECSSC
T ss_pred             CCEEEEEECCC
Confidence            99999996543

>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

Probab=99.37  E-value=4.3e-13  Score=119.76  Aligned_cols=79  Identities=18%  Similarity=0.263  Sum_probs=67.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|+.+++..|.|+.
T Consensus         8 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~   81 (87)
T 3s7r_A            8 EEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCT------IKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRV   81 (87)
T ss_dssp             CSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEE------EEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEE
Confidence            45678999999999999999999999999644331      234445688899999999999999999999899999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|.+
T Consensus        82 i~v~~   86 (87)
T 3s7r_A           82 IDPKK   86 (87)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            99974

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.37  E-value=7.2e-13  Score=120.21  Aligned_cols=81  Identities=22%  Similarity=0.278  Sum_probs=68.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   76 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIV------LMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRP   76 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEE------EECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEE------EeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcE
Confidence            3567999999999999999999999999644321      22444568889999999999999999999 9999999999


Q ss_pred             eEEeCCCc
Q 002093          540 LKIKRPKE  547 (967)
Q Consensus       540 l~V~rp~~  547 (967)
                      |+|.+...
T Consensus        77 l~V~~a~~   84 (95)
T 2dnz_A           77 MRVGHVTE   84 (95)
T ss_dssp             CEEEESSC
T ss_pred             EEEEEccc
Confidence            99986443

>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

Probab=99.37  E-value=1.3e-12  Score=119.31  Aligned_cols=79  Identities=18%  Similarity=0.310  Sum_probs=72.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccC--CeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG--GQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~--Gr~I~V~~  648 (967)
                      ..+.++|||+|||..+++++|+++|++||.|..|.+..+    +|||||+|.+.++|.+|++.|||..|.  |+.|.|.+
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~   89 (97)
T 1why_A           14 ANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDF   89 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEE
Confidence            345689999999999999999999999999999998754    899999999999999999999999999  99999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      +.+..
T Consensus        90 a~~~~   94 (97)
T 1why_A           90 AKSGP   94 (97)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            97654

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.37  E-value=7.9e-13  Score=120.75  Aligned_cols=81  Identities=21%  Similarity=0.256  Sum_probs=67.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeee---ecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV---IQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~---~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..   ++.++|||||+|.+.++|..||. |||..|.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   76 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCT------ISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD   76 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            4568999999999999999999999999643321      223333   45789999999999999999999 9999999


Q ss_pred             cceeEEeCCCc
Q 002093          537 GSILKIKRPKE  547 (967)
Q Consensus       537 Gr~l~V~rp~~  547 (967)
                      |+.|.|.+...
T Consensus        77 g~~l~V~~a~~   87 (98)
T 2cpf_A           77 GHKLEVRISER   87 (98)
T ss_dssp             TEECEEECSSC
T ss_pred             CeEEEEEEccC
Confidence            99999996543

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.37  E-value=5.9e-13  Score=123.53  Aligned_cols=78  Identities=12%  Similarity=0.066  Sum_probs=72.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...+|||+|||..+|+++|+++|++||.|.+|.|+.+. +.++|||||+|.+.++|.+|+. ++|..|+|+.|.|.++..
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEchH
Confidence            35789999999999999999999999999999999875 4569999999999999999998 999999999999998754

>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

Probab=99.37  E-value=9e-13  Score=120.60  Aligned_cols=80  Identities=30%  Similarity=0.423  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   79 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELH------YPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEE------EEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            4678999999999999999999999999643321      22344578889999999999999999997 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        80 l~V~~a~   86 (99)
T 1whw_A           80 LHVLPST   86 (99)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9998643

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.37  E-value=4.3e-13  Score=123.51  Aligned_cols=78  Identities=19%  Similarity=0.135  Sum_probs=68.1

Q ss_pred             CCCEEEEeCCCC------cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce
Q 002093          462 PMRRLCVENLPL------SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       462 ~~r~LyVgNLp~------~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      ..++|||+|||+      .+++++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+|+. |||..
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v------~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~   78 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNM------EFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKR   78 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEE------ECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEE------EEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcc
Confidence            357999999999      99999999999999964432      234566778999999999999999999998 99999


Q ss_pred             eec-ceeEEeCC
Q 002093          535 FSG-SILKIKRP  545 (967)
Q Consensus       535 l~G-r~l~V~rp  545 (967)
                      |.| ++|.|.++
T Consensus        79 ~~g~r~l~V~~a   90 (100)
T 3ns6_A           79 LDLKHRLFLYTM   90 (100)
T ss_dssp             SSSSCBCEEEES
T ss_pred             cCCCeEEEEEEC
Confidence            999 99999854

>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

Probab=99.37  E-value=1.2e-12  Score=121.34  Aligned_cols=81  Identities=17%  Similarity=0.186  Sum_probs=68.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee---
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF---  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l---  535 (967)
                      ....++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..+   
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~   83 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELT------VLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPG   83 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEE------CCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE------EEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCC
Confidence            45678999999999999999999999999644432      23455678899999999999999999999 999887   


Q ss_pred             ecceeEEeCCC
Q 002093          536 SGSILKIKRPK  546 (967)
Q Consensus       536 ~Gr~l~V~rp~  546 (967)
                      .|++|.|.++.
T Consensus        84 ~g~~l~v~~a~   94 (106)
T 2dgp_A           84 MNRPIQVKPAD   94 (106)
T ss_dssp             CSSCCEEEECC
T ss_pred             CCceEEEEECC
Confidence            89999998543

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.37  E-value=8.5e-13  Score=121.47  Aligned_cols=81  Identities=27%  Similarity=0.325  Sum_probs=69.5

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   82 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ------IPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGR   82 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEE------CCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEE------EEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            35678999999999999999999999999644432      23455678899999999999999999998 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        83 ~l~V~~a~   90 (102)
T 2cqb_A           83 TIRVNLAK   90 (102)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEeCC
Confidence            99998543

>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

Probab=99.37  E-value=1.4e-12  Score=119.51  Aligned_cols=79  Identities=14%  Similarity=0.278  Sum_probs=73.0

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.+.++    +|||||+|.+.++|.+|++.|||..|.|+.|.|.++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~----kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   88 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACH   88 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC----CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCC
Confidence            35689999999999999999999999999999999764    89999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        89 ~~~   91 (99)
T 2cpj_A           89 SAS   91 (99)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            543

>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

Probab=99.37  E-value=8.3e-13  Score=120.60  Aligned_cols=79  Identities=18%  Similarity=0.254  Sum_probs=68.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|.+|+. |||..|.|+.
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~------~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   86 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGS------VCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRK   86 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTT------CEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccce------EEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            446799999999999999999999999964432      234566778899999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.+.
T Consensus        87 l~V~~a   92 (98)
T 2cqp_A           87 VKLVLG   92 (98)
T ss_dssp             CEEEES
T ss_pred             EEEEEc
Confidence            999853

>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

Probab=99.37  E-value=1.2e-12  Score=122.38  Aligned_cols=81  Identities=27%  Similarity=0.347  Sum_probs=69.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc------C
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD------G  532 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln------g  532 (967)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. ||      |
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~   85 (111)
T 1x4h_A           12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVR------VVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGG   85 (111)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCC
Confidence            45678999999999999999999999999643321      33455678899999999999999999999 99      9


Q ss_pred             ceeecceeEEeCCC
Q 002093          533 CSFSGSILKIKRPK  546 (967)
Q Consensus       533 ~~l~Gr~l~V~rp~  546 (967)
                      ..|.|+.|.|.+..
T Consensus        86 ~~~~g~~l~v~~a~   99 (111)
T 1x4h_A           86 LKLDGRQLKVDLAV   99 (111)
T ss_dssp             EESSSCEEEEECCC
T ss_pred             cEEcCEEEEEEECC
Confidence            99999999998643

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.37  E-value=6.9e-13  Score=120.10  Aligned_cols=78  Identities=21%  Similarity=0.283  Sum_probs=66.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   87 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVT------IMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRV   87 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEE------ECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEE------EEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcE
Confidence            4567999999999999999999999999643321      22344567889999999999999999998 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|.+
T Consensus        88 l~v~~   92 (94)
T 2e5h_A           88 IKASI   92 (94)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            99984

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.36  E-value=1.2e-12  Score=123.14  Aligned_cols=82  Identities=17%  Similarity=0.205  Sum_probs=69.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||..+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDAR------VVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGR   85 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            45678999999999999999999999999643321      22344578889999999999999999999 999999999


Q ss_pred             eeEEeCCCc
Q 002093          539 ILKIKRPKE  547 (967)
Q Consensus       539 ~l~V~rp~~  547 (967)
                      .|.|.+...
T Consensus        86 ~l~V~~a~~   94 (115)
T 2dgo_A           86 QIRTNWATR   94 (115)
T ss_dssp             ECEEEESSC
T ss_pred             EEEEEEccC
Confidence            999996544

>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

Probab=99.36  E-value=1.1e-12  Score=123.32  Aligned_cols=79  Identities=15%  Similarity=0.331  Sum_probs=73.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|+.||.|..|.|+.+..  .++|||||+|.+.++|.+|| .|||..|+|+.|.|.++.+
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  103 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA  103 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCC
Confidence            47999999999999999999999999999999998764  46899999999999999999 8999999999999999866


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       104 ~~  105 (114)
T 2cq4_A          104 EK  105 (114)
T ss_dssp             HH
T ss_pred             Cc
Confidence            43

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

Probab=99.36  E-value=1.5e-12  Score=120.10  Aligned_cols=82  Identities=12%  Similarity=0.210  Sum_probs=74.1

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|++|| |..|.|+.+..  .++|||||+|.+.++|.+|+ .|||..|.|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~   89 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDI   89 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEE
Confidence            34578999999999999999999999997 99999998854  45899999999999999999 8999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        90 a~~~~~   95 (103)
T 2dng_A           90 AEGRKQ   95 (103)
T ss_dssp             CCCCCC
T ss_pred             ecCCCC
Confidence            976543

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.36  E-value=9.2e-13  Score=131.53  Aligned_cols=79  Identities=14%  Similarity=0.233  Sum_probs=72.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcC--CeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G--~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ...+|||+|||..+++++|+++|+.||  .|..|.|+.|.  +.++|||||+|.+.++|.+||..|||..|+|+.|.|.+
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~  133 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRP  133 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEE
Confidence            457999999999999999999999999  89999999884  44689999999999999999999999999999999999


Q ss_pred             ccc
Q 002093          649 AVL  651 (967)
Q Consensus       649 a~~  651 (967)
                      +.+
T Consensus       134 a~~  136 (156)
T 3n9u_C          134 ATR  136 (156)
T ss_dssp             CCH
T ss_pred             cCC
Confidence            865

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=1.6e-12  Score=121.92  Aligned_cols=83  Identities=16%  Similarity=0.250  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCee--------EEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCC
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLK--------AYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG  641 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~--------~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G  641 (967)
                      ...++|||+|||..+++++|+++|++||.|.        .|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   92 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCC
Confidence            3568999999999999999999999999998        68888874  3468999999999999999999999999999


Q ss_pred             eEEEEEEcccCCC
Q 002093          642 QVLTAVQAVLDGS  654 (967)
Q Consensus       642 r~I~V~~a~~~~~  654 (967)
                      +.|.|.++.+...
T Consensus        93 ~~l~V~~a~~~~~  105 (113)
T 2cpe_A           93 SKLKVSLARKKPP  105 (113)
T ss_dssp             EECEEECSSCCCC
T ss_pred             CEEEEEECCCCCC
Confidence            9999999976544

>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

Probab=99.36  E-value=7.5e-13  Score=127.89  Aligned_cols=83  Identities=14%  Similarity=0.239  Sum_probs=75.9

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +.+..+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.+
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            44568999999999999999999999999999999998753  5699999999999999999999999999999999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      +.+..
T Consensus       123 a~~~~  127 (129)
T 2kxn_B          123 SITKR  127 (129)
T ss_dssp             CSSSS
T ss_pred             ecCCC
Confidence            86643

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=2.4e-12  Score=118.74  Aligned_cols=80  Identities=23%  Similarity=0.330  Sum_probs=66.2

Q ss_pred             CCCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       459 ~~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .....++|||+|||+.+|+++|+++|+.||.+..+..+      .+  ...++|||||+|.+.++|..|+. |||..|.|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~------~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   82 (103)
T 2cqi_A           11 DDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMI------TE--HTSNDPYCFVEFYEHRDAAAALAAMNGRKILG   82 (103)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEE------CC--CCSSCCEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEE------ec--CCCCCCEEEEEECCHHHHHHHHHHhCCCCcCC
Confidence            34567899999999999999999999999964332111      11  23468999999999999999999 99999999


Q ss_pred             ceeEEeCCC
Q 002093          538 SILKIKRPK  546 (967)
Q Consensus       538 r~l~V~rp~  546 (967)
                      ++|+|.+..
T Consensus        83 ~~l~V~~a~   91 (103)
T 2cqi_A           83 KEVKVNWAT   91 (103)
T ss_dssp             EEEEEEECC
T ss_pred             CeEEEEECC
Confidence            999998643

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.36  E-value=9.5e-13  Score=123.81  Aligned_cols=79  Identities=11%  Similarity=0.117  Sum_probs=71.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcC-CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G-~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +....+|||+|||..+++++|+++|++|| .|..+.|...  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        25 p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~--~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a  102 (111)
T 2jvr_A           25 PAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR--DFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERD  102 (111)
T ss_dssp             CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC--SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEES
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC--CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            34568999999999999999999999999 8999988533  37999999999999999999999999999999999998


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus       103 ~~  104 (111)
T 2jvr_A          103 DN  104 (111)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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

Probab=99.36  E-value=6.2e-13  Score=123.09  Aligned_cols=75  Identities=19%  Similarity=0.255  Sum_probs=65.1

Q ss_pred             CCCCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC--ceee
Q 002093          461 RPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSFS  536 (967)
Q Consensus       461 ~~~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng--~~l~  536 (967)
                      .+.++|||+|||+ .+|+++|+++|++||            .|.++.+...+|||||+|.+.++|..|+. ||+  ..|.
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG------------~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~   80 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFG------------VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVF   80 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGS------------CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcC------------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceEC
Confidence            4678999999999 999999999999999            44555666678999999999999999999 886  5699


Q ss_pred             cceeEEeCCCc
Q 002093          537 GSILKIKRPKE  547 (967)
Q Consensus       537 Gr~l~V~rp~~  547 (967)
                      |++|.|.++..
T Consensus        81 Gr~l~V~~a~~   91 (102)
T 1x4d_A           81 GKPVRVHLSQK   91 (102)
T ss_dssp             TEECEEEEECC
T ss_pred             CcEEEEEECCC
Confidence            99999986543

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=8e-13  Score=121.05  Aligned_cols=80  Identities=20%  Similarity=0.332  Sum_probs=67.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      .+.++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||.||+..|.|+.|
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l   81 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVV------MIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKV   81 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEE------ECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEE
Confidence            4568999999999999999999999999643321      2234456788999999999999999999999999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      .|.+..
T Consensus        82 ~V~~a~   87 (99)
T 2dgs_A           82 EVKRAE   87 (99)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            998543

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=3e-12  Score=120.83  Aligned_cols=82  Identities=17%  Similarity=0.271  Sum_probs=74.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|++ .|.|+.|.|.++
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a   93 (116)
T 2cqd_A           15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLA   93 (116)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEc
Confidence            456899999999999999999999999999999998874  45699999999999999999999998 899999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        94 ~~~~~   98 (116)
T 2cqd_A           94 YLGAK   98 (116)
T ss_dssp             TTTCC
T ss_pred             ccCCC
Confidence            76543

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=9.7e-13  Score=121.08  Aligned_cols=80  Identities=24%  Similarity=0.356  Sum_probs=68.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   82 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVV------VVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGR   82 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEE------ECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEE------EEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            35678999999999999999999999999644332      22344567889999999999999999998 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|+|.+.
T Consensus        83 ~l~v~~a   89 (102)
T 1x5s_A           83 QIRVDQA   89 (102)
T ss_dssp             CCEEEEE
T ss_pred             EEEEEEC
Confidence            9999853

>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}

Probab=99.36  E-value=5.4e-13  Score=118.91  Aligned_cols=77  Identities=19%  Similarity=0.226  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   78 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDAR------VVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI   78 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEE------EEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            467999999999999999999999999643321      22344577889999999999999999999 99999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +|.+
T Consensus        79 ~v~~   82 (87)
T 3bs9_A           79 RTNW   82 (87)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            9985

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.36  E-value=5.1e-13  Score=115.78  Aligned_cols=73  Identities=16%  Similarity=0.332  Sum_probs=68.0

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.++|.+|++ |||..|+|+.|.|.+|
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            58999999999999999999999999999998875  4568999999999999999997 9999999999999875

>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

Probab=99.36  E-value=1.5e-12  Score=120.37  Aligned_cols=79  Identities=10%  Similarity=0.082  Sum_probs=71.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh--CCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L--nG~~~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||..+++++|+++|++||.|..|.|+.+    +|||||+|.+.++|.+|+..|  ++..|.|++|.|.++
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a   88 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYS   88 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEc
Confidence            34689999999999999999999999999999988764    899999999999999999977  468899999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        89 ~~~~~   93 (101)
T 2cq1_A           89 NHKEL   93 (101)
T ss_dssp             SCSSC
T ss_pred             CcccC
Confidence            76443

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

Probab=99.36  E-value=1.5e-12  Score=123.23  Aligned_cols=78  Identities=15%  Similarity=0.270  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++
T Consensus        38 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             CCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            346899999999999999999999999999999998874  456999999999999999999999999999999999886

>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

Probab=99.36  E-value=9.8e-13  Score=121.39  Aligned_cols=81  Identities=22%  Similarity=0.431  Sum_probs=74.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.+
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   87 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCC
Confidence            57899999999999999999999999999999998853  4589999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        88 ~~~   90 (104)
T 1p1t_A           88 EKN   90 (104)
T ss_dssp             TTH
T ss_pred             ccc
Confidence            543

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.36  E-value=7.4e-13  Score=123.80  Aligned_cols=80  Identities=25%  Similarity=0.324  Sum_probs=68.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~   96 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQ------LMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGR   96 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEE------EEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45668999999999999999999999999643321      23444567889999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|+|.+.
T Consensus        97 ~l~V~~a  103 (108)
T 2jrs_A           97 PMKVGHV  103 (108)
T ss_dssp             CCEEECS
T ss_pred             EEEEEEc
Confidence            9999854

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=3.5e-12  Score=115.19  Aligned_cols=78  Identities=18%  Similarity=0.259  Sum_probs=71.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....++|||+|||..+++++|+++|++||.|..|.++      ++||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   80 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV------KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST   80 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC------SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            3456899999999999999999999999999999985      5599999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        81 ~~~~   84 (92)
T 2dgt_A           81 SRLR   84 (92)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            6544

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.35  E-value=1.1e-12  Score=121.71  Aligned_cols=81  Identities=21%  Similarity=0.341  Sum_probs=68.5

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeee-eeecCCCcEEEEEEcCHHHHHHHHH-c-cCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIG-CVIQREKGQAFVEFLTAEDASAALC-C-DGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~-~~~~~skG~aFVeF~~~e~A~~Al~-l-ng~~l~  536 (967)
                      ....++|||+|||+.+|+++|+++|..||.+..+.      .+.+ ..++.++|||||+|.+.++|..||. | ||..|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~   85 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVR------LPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY   85 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEE------EecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeEC
Confidence            45678999999999999999999999999644331      2233 4577889999999999999999999 9 999999


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |+.|.|.+..
T Consensus        86 g~~l~v~~a~   95 (107)
T 2cph_A           86 GRRLVLEWAD   95 (107)
T ss_dssp             SCBCEEEECC
T ss_pred             CCEEEEEeCC
Confidence            9999998643

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=9.3e-13  Score=120.53  Aligned_cols=79  Identities=18%  Similarity=0.190  Sum_probs=67.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhc-CcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSS-GVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~-g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      .+.++|||+|||+++|+++|+++|+.||.+. .+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   80 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVK------IIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGA   80 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEE------EEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEE------EeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCC
Confidence            4678999999999999999999999999644 321      23445678889999999999999999999 999999999


Q ss_pred             e----eEEeCC
Q 002093          539 I----LKIKRP  545 (967)
Q Consensus       539 ~----l~V~rp  545 (967)
                      .    |+|.++
T Consensus        81 ~~~~~l~v~~a   91 (99)
T 2div_A           81 TPAKRFKLNYA   91 (99)
T ss_dssp             SSCEECCEEET
T ss_pred             CcceeEEEeec
Confidence            9    888753

>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

Probab=99.35  E-value=1.5e-12  Score=120.41  Aligned_cols=75  Identities=21%  Similarity=0.251  Sum_probs=64.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c--cCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l--ng~~l~  536 (967)
                      ..+.++|||+|||+.+|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|+. |  ++..|.
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~------------v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~   79 (101)
T 2cq1_A           12 GAPSRVLHIRKLPGEVTETEVIALGLPFGK------------VTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLR   79 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------EEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            356789999999999999999999999994            3444455569999999999999999998 6  468899


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|.|.+..
T Consensus        80 Gr~l~V~~a~   89 (101)
T 2cq1_A           80 NQPIYIQYSN   89 (101)
T ss_dssp             TEECEEEECS
T ss_pred             CcEEEEEEcC
Confidence            9999998543

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.35  E-value=3.1e-12  Score=124.62  Aligned_cols=84  Identities=18%  Similarity=0.347  Sum_probs=76.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|+.||.|..|.|+.+..+  ++|||||+|.+.++|.+|+..|||..|.|+.|.|.+
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  118 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            345689999999999999999999999999999999988643  589999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus       119 a~~~~~  124 (139)
T 1u6f_A          119 AASGHQ  124 (139)
T ss_dssp             SSCCCC
T ss_pred             CCCCCC
Confidence            977544

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1.9e-12  Score=119.88  Aligned_cols=83  Identities=13%  Similarity=0.291  Sum_probs=75.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+||.. +|..|.|+.|.|.+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~   91 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKP   91 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            44578999999999999999999999999999999998843  4589999999999999999998 99999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        92 a~~~~~   97 (105)
T 2dh8_A           92 CTPRGM   97 (105)
T ss_dssp             SCCSSC
T ss_pred             ccCCCC
Confidence            876543

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=5.7e-13  Score=122.93  Aligned_cols=80  Identities=25%  Similarity=0.302  Sum_probs=68.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+.
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   84 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVY------IPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRE   84 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEE------CCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            4568999999999999999999999999643321      23455568899999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        85 l~V~~a~   91 (103)
T 2dnm_A           85 LRVQVAR   91 (103)
T ss_dssp             CEEEECS
T ss_pred             EEEEECC
Confidence            9998644

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

Probab=99.35  E-value=1.9e-12  Score=118.25  Aligned_cols=79  Identities=18%  Similarity=0.339  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ....+|||+|||..+++++|+++|++||.|. +.++.+  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   93 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ--GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQ   93 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE--TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC--CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            3468999999999999999999999999997 666654  4799999999999999999999999999999999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        94 ~~   95 (97)
T 2e5j_A           94 QR   95 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1.9e-12  Score=116.62  Aligned_cols=80  Identities=16%  Similarity=0.258  Sum_probs=72.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ....+|||+|||..+++++|+++|+.| .|..|.|+.+. +.++|||||+|.+.++|.+|+. |||..|+|+.|.|.++.
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREK   85 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEES
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECC
Confidence            456899999999999999999999999 99999998873 3458999999999999999999 99999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        86 ~~~   88 (91)
T 2dgw_A           86 SGP   88 (91)
T ss_dssp             SCC
T ss_pred             cCC
Confidence            653

>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

Probab=99.35  E-value=7.9e-13  Score=119.95  Aligned_cols=78  Identities=19%  Similarity=0.315  Sum_probs=67.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|.+||. |||..|.|++|
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~------~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l   87 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGS------VCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKV   87 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTC------CEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccce------EEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEE
Confidence            45799999999999999999999999964332      234556678899999999999999999999 99999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|..+
T Consensus        88 ~v~~a   92 (95)
T 2ek1_A           88 KLSGP   92 (95)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99853

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=2.2e-13  Score=121.09  Aligned_cols=79  Identities=15%  Similarity=0.244  Sum_probs=67.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   76 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTK------AILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQM   76 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEE------EECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEE
Confidence            4568999999999999999999999999644332      22344568889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |++.++
T Consensus        77 ~~~~~~   82 (85)
T 1x4e_A           77 AKQSGP   82 (85)
T ss_dssp             CCSSCC
T ss_pred             EeecCC
Confidence            999864

>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

Probab=99.35  E-value=7.4e-13  Score=116.92  Aligned_cols=76  Identities=21%  Similarity=0.306  Sum_probs=65.6

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      .+|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++|+|
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~------i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v   75 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGH------VMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRI   75 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEE------EEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE------EEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEE
Confidence            5899999999999999999999999644321      22444568889999999999999999999 9999999999999


Q ss_pred             eCC
Q 002093          543 KRP  545 (967)
Q Consensus       543 ~rp  545 (967)
                      .+.
T Consensus        76 ~~a   78 (83)
T 3md1_A           76 NWA   78 (83)
T ss_dssp             EEC
T ss_pred             Eec
Confidence            853

>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

Probab=99.35  E-value=2.4e-12  Score=119.64  Aligned_cols=77  Identities=10%  Similarity=0.112  Sum_probs=69.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCC--CccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG--~~~~Gr~I~V~~a~  650 (967)
                      +..+|||+|||..+++++|+++|++||.|..|.|+++    +|||||+|.+.++|.+|+..|+|  ..|.|++|.|.++.
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~   89 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcc
Confidence            4689999999999999999999999999999998764    89999999999999999998876  45999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        90 ~~~   92 (104)
T 1wex_A           90 SKR   92 (104)
T ss_dssp             SSS
T ss_pred             Ccc
Confidence            644

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1.9e-12  Score=114.96  Aligned_cols=74  Identities=20%  Similarity=0.403  Sum_probs=69.6

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.++.+    +|||||+|.+.++|.+|+..| +|..|+|+.|.|.++
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~----kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR----QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG----GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC----CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            34689999999999999999999999999999999874    899999999999999999999 999999999999987

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=3.3e-12  Score=114.91  Aligned_cols=77  Identities=22%  Similarity=0.295  Sum_probs=71.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ....+|||+|||..+++++|+++|++||.|..|.++      ++||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   80 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV------KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTK   80 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCC
Confidence            456899999999999999999999999999999985      55999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        81 ~~~   83 (90)
T 2dnp_A           81 GQK   83 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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

Probab=99.35  E-value=2.3e-12  Score=121.18  Aligned_cols=80  Identities=30%  Similarity=0.411  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||..+|+++|+++|..||.+..+.      ..++..++.++|||||+|.+.++|..||. |||..|.|++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~------~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   96 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP------IQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKI   96 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC------CEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceE------EEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            4568999999999999999999999999754321      22455588999999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        97 l~v~~a~  103 (115)
T 2cpx_A           97 LVIEFGK  103 (115)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcc
Confidence            9998643

>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

Probab=99.34  E-value=2.9e-12  Score=117.29  Aligned_cols=76  Identities=16%  Similarity=0.263  Sum_probs=70.5

Q ss_pred             cCCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....++|||+|||. .+++++|+++|++||.|..|.+      .+|||||+|.+.++|.+|+..|||..|+|+.|.|.++
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVS   92 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEE------CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEEC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            34578999999998 9999999999999999999988      4899999999999999999999999999999999998


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .+.
T Consensus        93 ~~~   95 (97)
T 2xnq_A           93 SSN   95 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            653

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.34  E-value=1.7e-12  Score=122.08  Aligned_cols=75  Identities=21%  Similarity=0.250  Sum_probs=63.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhh-hhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFL-LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG-~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....+|||+|||+.+|+++|+++|+.|| .+..          +.+....++|||||+|.+.++|..|++ |||..|.|+
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~----------v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr   95 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLETTF----------SSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGS   95 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSE----------EECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETTE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEE----------EEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            4457999999999999999999999999 4222          122234689999999999999999998 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|+|...
T Consensus        96 ~i~V~~a  102 (111)
T 2jvr_A           96 VITVERD  102 (111)
T ss_dssp             EEEEEES
T ss_pred             EEEEEEC
Confidence            9999853

>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

Probab=99.34  E-value=9.6e-13  Score=117.79  Aligned_cols=77  Identities=22%  Similarity=0.272  Sum_probs=66.7

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+.|||..|.|+.|.|
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V   79 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVT------ILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKV   79 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEE------EEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEE
Confidence            47999999999999999999999999644321      224445788999999999999999999999999999999999


Q ss_pred             eCC
Q 002093          543 KRP  545 (967)
Q Consensus       543 ~rp  545 (967)
                      .+.
T Consensus        80 ~~a   82 (89)
T 3ucg_A           80 IPK   82 (89)
T ss_dssp             EET
T ss_pred             EEc
Confidence            854

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.34  E-value=8.8e-13  Score=119.63  Aligned_cols=79  Identities=24%  Similarity=0.291  Sum_probs=66.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+ ..+.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        13 ~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~------i~~~-~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (95)
T 2ywk_A           13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVT------ICKD-REGKPKSFGFVCFKHPESVSYAIALLNGIRLYGR   85 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------EEEC-TTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEE------EEEC-CCCCCceEEEEEECCHHHHHHHHHHhCCCEECCC
Confidence            34568999999999999999999999999644321      1122 237789999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|.|.++
T Consensus        86 ~l~V~~a   92 (95)
T 2ywk_A           86 PINVSGP   92 (95)
T ss_dssp             ECEEECC
T ss_pred             EEEEEEc
Confidence            9999854

>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

Probab=99.34  E-value=1.7e-12  Score=120.67  Aligned_cols=75  Identities=21%  Similarity=0.151  Sum_probs=63.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC--ceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng--~~l~  536 (967)
                      ..+.++|||+|||+.+|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|+. |++  ..|.
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~------------V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~   79 (104)
T 1wex_A           12 VSVSPVVHVRGLCESVVEADLVEALEKFGT------------ICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIA   79 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCC------------EEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            356789999999999999999999999994            3444444569999999999999999999 865  4599


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|.|.+..
T Consensus        80 Gr~l~V~~a~   89 (104)
T 1wex_A           80 GQQAFFNYST   89 (104)
T ss_dssp             SSBCEEEECS
T ss_pred             CEEEEEEEcc
Confidence            9999998543

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

Probab=99.34  E-value=1.2e-12  Score=121.54  Aligned_cols=80  Identities=16%  Similarity=0.248  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCcc------hHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCc
Q 002093          461 RPMRRLCVENLPLSA------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC  533 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~------TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~  533 (967)
                      ...++|||+|||+.+      |+++|+++|+.||.+..+   .    |. ..++.++|||||+|.+.++|..|+. |||.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v---~----i~-~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~   84 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITND---F----YP-EEDGKTKGYIFLEYASPAHAVDAVKNADGY   84 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEE---E----CC-CBTTBSCCEEEEEECSSSHHHHHHHHCSSE
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEE---E----ee-CCCCCeeeEEEEEECCHHHHHHHHHHhCCc
Confidence            456799999999999      899999999999964432   1    12 3567899999999999999999999 9999


Q ss_pred             eeecc-eeEEeCCCcc
Q 002093          534 SFSGS-ILKIKRPKEF  548 (967)
Q Consensus       534 ~l~Gr-~l~V~rp~~~  548 (967)
                      .|.|+ +|+|.++.+.
T Consensus        85 ~~~g~~~l~V~~a~~~  100 (105)
T 2nlw_A           85 KLDKQHTFRVNLFTDF  100 (105)
T ss_dssp             ECSTTCEEEEECSCCC
T ss_pred             ccCCCceEEEEEcchH
Confidence            99999 9999976544

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=8.2e-13  Score=122.45  Aligned_cols=79  Identities=18%  Similarity=0.169  Sum_probs=67.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   94 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIH------LNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQP   94 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEE------EEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcE
Confidence            4567999999999999999999999999644321      22444568889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.++
T Consensus        95 l~V~~a  100 (106)
T 1p27_B           95 ISVDWC  100 (106)
T ss_dssp             CEEEES
T ss_pred             EEEEee
Confidence            999853

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=8.2e-13  Score=121.86  Aligned_cols=81  Identities=26%  Similarity=0.327  Sum_probs=68.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   85 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIY------LAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHL   85 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEE------EEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEE------EeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            35578999999999999999999999999644321      22444578889999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|.+..
T Consensus        86 ~l~v~~a~   93 (103)
T 2cq0_A           86 ILNVEWAK   93 (103)
T ss_dssp             ECEEEESS
T ss_pred             EEEEEECC
Confidence            99998543

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

Probab=99.34  E-value=1.7e-12  Score=125.56  Aligned_cols=82  Identities=11%  Similarity=0.192  Sum_probs=74.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeE--EEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCC----ccCCeE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--YHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGL----KVGGQV  643 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~----~~~Gr~  643 (967)
                      ...++|||+|||..+|+++|+++|++||.|..  |+|+.|.  +.++|||||+|.+. +|.+|+..|||.    .|.|+.
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~   99 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKT   99 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEE
Confidence            35689999999999999999999999999976  9999886  45699999999999 999999999999    999999


Q ss_pred             EEEEEcccCCC
Q 002093          644 LTAVQAVLDGS  654 (967)
Q Consensus       644 I~V~~a~~~~~  654 (967)
                      |.|.++.+...
T Consensus       100 l~V~~a~~~~~  110 (131)
T 2m2b_A          100 INVEFAKGSKR  110 (131)
T ss_dssp             CCCEECCCSCC
T ss_pred             EEEEECCCCCC
Confidence            99999977644

>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

Probab=99.34  E-value=1.2e-12  Score=119.89  Aligned_cols=75  Identities=23%  Similarity=0.315  Sum_probs=66.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.            |..+.+..++|||||+|.+.++|..|+. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~------------i~~v~~~~~kg~afV~f~~~~~a~~a~~~l~g~~~~g~   79 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGK------------AGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGK   79 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTCC------------CSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcCC------------eEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            356789999999999999999999999994            3455556779999999999999999998 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      +|.|.++.
T Consensus        80 ~l~v~~a~   87 (99)
T 2cpj_A           80 QLRVRFAC   87 (99)
T ss_dssp             CCEEEESS
T ss_pred             eEEEEEcC
Confidence            99998643

>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

Probab=99.34  E-value=1.4e-12  Score=122.61  Aligned_cols=90  Identities=19%  Similarity=0.314  Sum_probs=78.6

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  755 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~  755 (967)
                      ..++++|+|.||+.+.+|. .++++|+++.+||+++|++||.|+.|.|+..   ..+|||||+|.+.++|.+|+..|||.
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~-~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~---~~~G~afV~f~~~~~A~~Ai~~lng~   87 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFE-DDPLVLNEIREDLRVECSKFGQIRKLLLFDR---HPDGVASVSFRDPEEADYCIQTLDGR   87 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHH-HCSHHHHHHHHHHHHHGGGTSCCSEEEEETT---CTTCEEEEECSCHHHHHHHHHHSTTC
T ss_pred             CCCceEEEEEcCCCHHHhc-cCHHHHHHHHHHHHHHHHccCCEeEEEEecC---CCCEEEEEEECCHHHHHHHHHHcCCC
Confidence            4679999999999887753 4567889999999999999999999977432   26899999999999999999999999


Q ss_pred             ccCCCcceeEEeec
Q 002093          756 ETNEKGERLEEVTD  769 (967)
Q Consensus       756 ~~~~r~~~v~~~~~  769 (967)
                      .|.|+.+.|.....
T Consensus        88 ~~~gr~l~v~~a~~  101 (112)
T 2dit_A           88 WFGGRQITAQAWDG  101 (112)
T ss_dssp             EETTEECEEEECCS
T ss_pred             EECCcEEEEEEeCC
Confidence            99999999987644

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

Probab=99.34  E-value=2.2e-12  Score=124.23  Aligned_cols=80  Identities=13%  Similarity=0.220  Sum_probs=71.4

Q ss_pred             CCceEEEcCCCcccCHHHHH----HHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~----e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +.++|||+|||..+++++|+    ++|++||.|..|.+.. .+.++|||||+|.+.++|..|+..|||..|.|++|.|.+
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~-~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~  106 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL-SDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF  106 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC-CCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc-CCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEE
Confidence            46799999999999999876    7999999999988754 345799999999999999999999999999999999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      +.+..
T Consensus       107 a~~~~  111 (127)
T 2a3j_A          107 SETPQ  111 (127)
T ss_dssp             CCCCC
T ss_pred             ccCcc
Confidence            96543

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

Probab=99.34  E-value=8.7e-13  Score=116.34  Aligned_cols=71  Identities=17%  Similarity=0.288  Sum_probs=61.7

Q ss_pred             CEEEEeCCCCcc------hHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          464 RRLCVENLPLSA------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       464 r~LyVgNLp~~~------TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ++|||+|||..+      |+++|+++|+.||.+..+   .    +. ..++.++|||||+|.+.++|..|+. |||..|.
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v---~----i~-~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~   73 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITND---F----YP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD   73 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEE---E----CC-CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEE---E----ec-CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccC
Confidence            689999999999      889999999999964432   1    12 3567899999999999999999999 9999999


Q ss_pred             cc-eeEE
Q 002093          537 GS-ILKI  542 (967)
Q Consensus       537 Gr-~l~V  542 (967)
                      |+ +|+|
T Consensus        74 g~~~l~V   80 (81)
T 2krb_A           74 KQHTFRV   80 (81)
T ss_dssp             SSSCCCC
T ss_pred             CceeEEe
Confidence            99 8876

>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

Probab=99.34  E-value=4.1e-12  Score=117.34  Aligned_cols=77  Identities=19%  Similarity=0.316  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCC
Confidence            346899999999999999999999999999999885      67999999999999999999999999999999999977


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        83 ~~~   85 (103)
T 2dgu_A           83 PDQ   85 (103)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            554

>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

Probab=99.33  E-value=1.6e-12  Score=120.30  Aligned_cols=80  Identities=25%  Similarity=0.269  Sum_probs=66.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec-
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG-  537 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G-  537 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.       |....++.++|||||+|.+.++|..||. |||..|.| 
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~-------i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg   84 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECT-------VLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPG   84 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEE-------EEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE-------EEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCC
Confidence            34578999999999999999999999999644331       2222367889999999999999999999 99999988 


Q ss_pred             --ceeEEeCCC
Q 002093          538 --SILKIKRPK  546 (967)
Q Consensus       538 --r~l~V~rp~  546 (967)
                        ++|.|.++.
T Consensus        85 ~~~~l~V~~a~   95 (105)
T 2dnh_A           85 ASSSLVVKFAD   95 (105)
T ss_dssp             CSSCCEEEESC
T ss_pred             CCccEEEEECc
Confidence              999998543

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

Probab=99.33  E-value=2.3e-12  Score=120.52  Aligned_cols=76  Identities=25%  Similarity=0.372  Sum_probs=71.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.++      +|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+
T Consensus        29 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  102 (108)
T 2jvo_A           29 LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKL  102 (108)
T ss_dssp             CSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecC
Confidence            456899999999999999999999999999999986      79999999999999999999999999999999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       103 ~~  104 (108)
T 2jvo_A          103 PA  104 (108)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.33  E-value=1.3e-12  Score=124.22  Aligned_cols=81  Identities=26%  Similarity=0.323  Sum_probs=67.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+.++..+.   .+.+.. ++++|||||+|.+.++|.+||.|||..|.|+.|
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~---i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i   90 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVH---FIYTRE-GRQSGEAFVELESEDDVKLALKKDRESMGHRYI   90 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEE---EEECSS-SCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEE---EEECCC-CCCCeEEEEEECCHHHHHHHHhcCCCeECCeEE
Confidence            4568999999999999999999999999633333332   233433 889999999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|.+.
T Consensus        91 ~V~~a   95 (118)
T 2db1_A           91 EVFKS   95 (118)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            99853

>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

Probab=99.33  E-value=1.2e-12  Score=119.47  Aligned_cols=80  Identities=13%  Similarity=0.153  Sum_probs=72.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||..+++++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|++.|||..|.|+.|.|.++
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            3568999999999999999999999999998777766643  45899999999999999999999999999999999998


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        93 ~~   94 (98)
T 2cqp_A           93 SG   94 (98)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.33  E-value=1.8e-12  Score=119.20  Aligned_cols=75  Identities=19%  Similarity=0.298  Sum_probs=70.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.+..    ++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  100 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP----EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE  100 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccC
Confidence            458999999999999999999999999999999873    689999999999999999999999999999999988854

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

Probab=99.33  E-value=2.8e-12  Score=117.05  Aligned_cols=74  Identities=19%  Similarity=0.234  Sum_probs=64.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+.           +.+.++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-----------~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   85 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-----------LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDT   85 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-----------SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-----------EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            4567999999999999999999999999521           233456899999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        86 l~V~~a   91 (97)
T 2e5j_A           86 LRVALA   91 (97)
T ss_dssp             CEEEEC
T ss_pred             EEEEEc
Confidence            999853

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

Probab=99.33  E-value=1.4e-12  Score=113.48  Aligned_cols=74  Identities=22%  Similarity=0.336  Sum_probs=69.1

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ++|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.++|.+|+..++ ..|+|+.|.|.+|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            379999999999999999999999999999998875  4569999999999999999999999 9999999999887

>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}

Probab=99.33  E-value=1.8e-12  Score=115.61  Aligned_cols=77  Identities=19%  Similarity=0.303  Sum_probs=64.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecC-CCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~-skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ..++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++. ++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~------i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   76 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMID------MPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQE   76 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEE------EEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeE
Confidence            457999999999999999999999999643321      223333344 89999999999999999999 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|..
T Consensus        77 l~v~~   81 (88)
T 4a8x_A           77 ITATA   81 (88)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99984

>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

Probab=99.33  E-value=1.2e-12  Score=123.55  Aligned_cols=79  Identities=19%  Similarity=0.266  Sum_probs=67.5

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhh-cCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLS-SGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~-~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|..||.+ ..+.      .+.+. ++.++|||||+|.+.++|.+||.+|+..|.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~------i~~d~-~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr   84 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVH------VLVDN-NGQGLGQALVQFKNEDDARKSERLHRKKLNGR   84 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEE------ECCCT-TSSCSSCEEEECSSHHHHHHHGGGCSEEETTE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEE------EEECC-CCCcceEEEEEECCHHHHHHHHHhCCCccCCe
Confidence            3456899999999999999999999999864 3321      22344 78899999999999999999999999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|.|.++
T Consensus        85 ~i~v~~a   91 (114)
T 2cpy_A           85 EAFVHVV   91 (114)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEC
Confidence            9999854

>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

Probab=99.33  E-value=4.8e-12  Score=118.04  Aligned_cols=79  Identities=24%  Similarity=0.325  Sum_probs=65.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.         -...+.++|||||+|.+.++|..||. ||+..|.|+
T Consensus        19 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~---------i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   89 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDID---------LKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGY   89 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEE---------ECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE---------EEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            34568999999999999999999999999533221         12235579999999999999999997 999999999


Q ss_pred             eeEEeCCCc
Q 002093          539 ILKIKRPKE  547 (967)
Q Consensus       539 ~l~V~rp~~  547 (967)
                      .|.|.+...
T Consensus        90 ~l~V~~a~~   98 (109)
T 1x4a_A           90 RLRVEFPRS   98 (109)
T ss_dssp             ECEEECCCC
T ss_pred             EEEEEEccc
Confidence            999986443

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.33  E-value=6.3e-13  Score=122.28  Aligned_cols=80  Identities=16%  Similarity=0.259  Sum_probs=71.1

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ....++|||+|||..+++++|+++|++|| |..|.|+.+.   +.++|||||+|.+.++|.+|+ .|||..|+|+.|.|.
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~   93 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVD   93 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEE
Confidence            34578999999999999999999999999 9999998875   456999999999999999999 899999999999999


Q ss_pred             EcccC
Q 002093          648 QAVLD  652 (967)
Q Consensus       648 ~a~~~  652 (967)
                      ++.+.
T Consensus        94 ~a~~~   98 (100)
T 2j76_E           94 VADQA   98 (100)
T ss_dssp             ECCCS
T ss_pred             eccCC
Confidence            98654

>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*

Probab=99.33  E-value=1.6e-12  Score=121.41  Aligned_cols=78  Identities=21%  Similarity=0.191  Sum_probs=67.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   97 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIH------LNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT   97 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------CCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            4567999999999999999999999999643321      22444568889999999999999999999 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|.+
T Consensus        98 l~V~~  102 (110)
T 1oo0_B           98 IQVDW  102 (110)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99985

>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

Probab=99.33  E-value=7.7e-13  Score=120.02  Aligned_cols=78  Identities=12%  Similarity=0.164  Sum_probs=70.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            468999999999999999999999999998877777643  458999999999999999999999999999999998874

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.33  E-value=5.2e-13  Score=120.00  Aligned_cols=79  Identities=20%  Similarity=0.350  Sum_probs=70.1

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ++|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.+ |.+|+..|||..|+|+.|.|.+|.+.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~   80 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPK   80 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC---
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCC
Confidence            479999999999999999999999999999998875  456999999999999 99999999999999999999999765


Q ss_pred             CC
Q 002093          653 GS  654 (967)
Q Consensus       653 ~~  654 (967)
                      ..
T Consensus        81 ~~   82 (90)
T 2ki2_A           81 KS   82 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            43

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

Probab=99.33  E-value=1.6e-12  Score=125.72  Aligned_cols=82  Identities=17%  Similarity=0.239  Sum_probs=69.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCc----e
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC----S  534 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~----~  534 (967)
                      ....++|||+|||+.+|+++|+++|..||.+... .|   ..+.+..++.++|||||+|.+. +|..|+. |||.    .
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~-~v---~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~   94 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPYAVLSSS-NV---RVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLT   94 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTT-TE---ECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccee-eE---EEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCcc
Confidence            3556799999999999999999999999974320 01   2446667899999999999999 9999999 9999    9


Q ss_pred             eecceeEEeCCC
Q 002093          535 FSGSILKIKRPK  546 (967)
Q Consensus       535 l~Gr~l~V~rp~  546 (967)
                      |.|+.|.|.+..
T Consensus        95 ~~gr~l~V~~a~  106 (131)
T 2m2b_A           95 IDGKTINVEFAK  106 (131)
T ss_dssp             GGGCCCCCEECC
T ss_pred             CCCEEEEEEECC
Confidence            999999998644

>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

Probab=99.32  E-value=2.4e-12  Score=119.86  Aligned_cols=82  Identities=18%  Similarity=0.244  Sum_probs=73.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCC-eeEEEEe-ecCC--CCCCEEEEeecCcchHHHHHHHhC--CCccCCeEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFE-VNED--HEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTA  646 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~-V~~v~l~-~d~~--~skG~aFVeF~~~e~A~~Al~~Ln--G~~~~Gr~I~V  646 (967)
                      ..++|||+|||..+++++|+++|++||. |..|.|+ .+..  .++|||||+|.+.++|.+|+..|+  +..|.|+.|.|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V   86 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   86 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEE
Confidence            4679999999999999999999999998 9999987 5544  569999999999999999999996  59999999999


Q ss_pred             EEcccCCC
Q 002093          647 VQAVLDGS  654 (967)
Q Consensus       647 ~~a~~~~~  654 (967)
                      .++.+...
T Consensus        87 ~~a~~~~~   94 (109)
T 2dis_A           87 DWAEPEID   94 (109)
T ss_dssp             EESCSSCS
T ss_pred             EEcCCCCC
Confidence            99977554

>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

Probab=99.32  E-value=9.8e-13  Score=123.71  Aligned_cols=76  Identities=29%  Similarity=0.394  Sum_probs=65.2

Q ss_pred             CCCCCEEEEeCCCCc-chHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc--Ccee
Q 002093          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSF  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~-~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln--g~~l  535 (967)
                      ..+.++|||+|||++ +|+++|+++|++||.            |.++.+.+++|||||+|.+.++|..|+. ||  +..|
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~------------V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l   89 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGK------------IKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWF   89 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSC------------CSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCS
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCC------------EEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            456789999999998 999999999999994            3455556789999999999999999999 76  4679


Q ss_pred             ecceeEEeCCCc
Q 002093          536 SGSILKIKRPKE  547 (967)
Q Consensus       536 ~Gr~l~V~rp~~  547 (967)
                      .|++|.|.+...
T Consensus        90 ~Gr~l~V~~a~~  101 (112)
T 1x4f_A           90 QGRCVKVDLSEK  101 (112)
T ss_dssp             SSSCCEEEEECS
T ss_pred             CCEEEEEEECcc
Confidence            999999986443

>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

Probab=99.32  E-value=1.7e-12  Score=123.33  Aligned_cols=74  Identities=22%  Similarity=0.307  Sum_probs=63.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc--Cceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln--g~~l~G  537 (967)
                      .+.++|||+|||+.+|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|+. |+  +..|.|
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~------------V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~G   96 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGK------------VTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRG   96 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSC------------CCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------EEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCceECC
Confidence            45689999999999999999999999995            3334444468999999999999999999 87  468999


Q ss_pred             ceeEEeCCC
Q 002093          538 SILKIKRPK  546 (967)
Q Consensus       538 r~l~V~rp~  546 (967)
                      ++|.|.+..
T Consensus        97 r~l~V~~a~  105 (119)
T 2ad9_A           97 QPIYIQFSN  105 (119)
T ss_dssp             BCCEEEECS
T ss_pred             eEEEEEEcc
Confidence            999998543

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.32  E-value=1.7e-12  Score=119.02  Aligned_cols=78  Identities=23%  Similarity=0.350  Sum_probs=66.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..+.      .+.+. ++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   87 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKDLR------LVTNR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKENI   87 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEE------EEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEE------EEECC-CCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            4568999999999999999999999999643321      12222 67889999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.+.
T Consensus        88 l~v~~a   93 (100)
T 2do4_A           88 IKVAIS   93 (100)
T ss_dssp             EEEEEC
T ss_pred             EEEEEC
Confidence            999853

>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

Probab=99.32  E-value=3.7e-12  Score=126.68  Aligned_cols=82  Identities=13%  Similarity=0.242  Sum_probs=75.6

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+||..|||..|.|+.|.|.++
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  116 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD  116 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3568999999999999999999999999999999998854  35899999999999999999999999999999999999


Q ss_pred             ccCC
Q 002093          650 VLDG  653 (967)
Q Consensus       650 ~~~~  653 (967)
                      .+..
T Consensus       117 ~~~~  120 (156)
T 1h2v_Z          117 AGFK  120 (156)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7644

>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

Probab=99.32  E-value=3.4e-12  Score=116.43  Aligned_cols=73  Identities=21%  Similarity=0.228  Sum_probs=64.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee--c
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS--G  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~--G  537 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.            |..+.+...+|||||+|.+.++|..|+. |||..|.  |
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~------------v~~v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~g   82 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGS------------IRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPD   82 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSC------------EEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------eeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCC
Confidence            45679999999999999999999999994            4445555568999999999999999999 9999999  9


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      +.|.|.+.
T Consensus        83 ~~l~V~~a   90 (97)
T 1why_A           83 RRLRVDFA   90 (97)
T ss_dssp             CBCEEEEC
T ss_pred             cEEEEEEC
Confidence            99999853

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.32  E-value=3e-12  Score=122.22  Aligned_cols=79  Identities=10%  Similarity=0.275  Sum_probs=73.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+ .|||..|+|+.|.|.++.+
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  114 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRT  114 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCC
Confidence            5799999999999999999999999999999998874  456999999999999999999 7999999999999999865


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       115 ~~  116 (124)
T 2jwn_A          115 NM  116 (124)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.32  E-value=3.1e-12  Score=119.71  Aligned_cols=81  Identities=21%  Similarity=0.292  Sum_probs=71.9

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..+ |..|+|+.|.|.++
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a  101 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVA  101 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEc
Confidence            456899999999999999999999999999999999885  456999999999999999999976 59999999999999


Q ss_pred             ccCC
Q 002093          650 VLDG  653 (967)
Q Consensus       650 ~~~~  653 (967)
                      .+..
T Consensus       102 ~~~~  105 (109)
T 2rs2_A          102 FPRR  105 (109)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            7654

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=4.8e-12  Score=113.81  Aligned_cols=73  Identities=22%  Similarity=0.361  Sum_probs=63.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||.++|+++|+++|+.||.            |..+.+.  +|||||+|.+.++|..|+. |||..|.|+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~------------i~~v~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   71 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGK------------VLECDII--KNYGFVHIEDKTAAEDAIRNLHHYKLHGVN   71 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSC------------EEEEEEE--TTEEEEEESSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCC------------EEEEEEE--CCEEEEEECCHHHHHHHHHHhcCCccCCcE
Confidence            45689999999999999999999999994            2333332  7999999999999999998 9999999999


Q ss_pred             eEEeCCCc
Q 002093          540 LKIKRPKE  547 (967)
Q Consensus       540 l~V~rp~~  547 (967)
                      |+|.+...
T Consensus        72 l~v~~a~~   79 (90)
T 2dnq_A           72 INVEASKN   79 (90)
T ss_dssp             CEEECSSC
T ss_pred             EEEEECCC
Confidence            99996543

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=9.5e-12  Score=113.91  Aligned_cols=77  Identities=16%  Similarity=0.227  Sum_probs=70.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhc--CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAF--GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~--G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++|  |.|..|.+      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   86 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK------IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   86 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE------CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEE------eCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            356899999999999999999999999  89998876      4789999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        87 ~~~~~   91 (99)
T 2cpd_A           87 KPVDK   91 (99)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            76543

>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

Probab=99.32  E-value=1.9e-12  Score=121.67  Aligned_cols=75  Identities=19%  Similarity=0.145  Sum_probs=70.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.    ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++...
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   84 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            57899999999999999999999999999998864    5899999999999999999999999999999999999654

>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

Probab=99.32  E-value=1.7e-12  Score=120.56  Aligned_cols=77  Identities=23%  Similarity=0.268  Sum_probs=66.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..||.+..+.      .+.+. ++.++|||||+|.+.++|.+|+. |||..|.|+.
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   99 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAA------VHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDGRP   99 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            4567999999999999999999999999643321      22333 77889999999999999999999 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|..
T Consensus       100 l~V~~  104 (107)
T 3ulh_A          100 MNIQL  104 (107)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99984

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

Probab=99.32  E-value=2e-12  Score=119.33  Aligned_cols=80  Identities=20%  Similarity=0.318  Sum_probs=68.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ..+.++|||+|||+.+|+++|+++|..||    |..+.   .+.+..++.++|||||+|.+.++|..||.|||..|.|+.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g----i~~v~---i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~   84 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS----IRSVR---LVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRS   84 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC----EEEEE---EEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC----ceEEE---EeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeE
Confidence            34578999999999999999999999986    33332   335556788999999999999999999999999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        85 l~V~~a~   91 (103)
T 2dng_A           85 LRVDIAE   91 (103)
T ss_dssp             CEEEECC
T ss_pred             EEEEEec
Confidence            9998543

>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* ...

Probab=99.32  E-value=1.5e-12  Score=118.53  Aligned_cols=81  Identities=15%  Similarity=0.243  Sum_probs=73.1

Q ss_pred             CCCceEEEcCCCcccCHHHHH----HHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~----e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      .+.++|||+|||..+++++|+    ++|++||.|..|.+... +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   84 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   84 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC-CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            356899999999999999999    99999999999988642 3458999999999999999999999999999999999


Q ss_pred             EcccCC
Q 002093          648 QAVLDG  653 (967)
Q Consensus       648 ~a~~~~  653 (967)
                      ++.+..
T Consensus        85 ~a~~~~   90 (97)
T 1nu4_A           85 YAKTDS   90 (97)
T ss_dssp             ECSSCC
T ss_pred             EccCCC
Confidence            997654

>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

Probab=99.32  E-value=5.6e-12  Score=117.66  Aligned_cols=76  Identities=21%  Similarity=0.305  Sum_probs=66.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||..+|+++|+++|..||.            |..+.+...+|||||+|.+.++|..|+. |||..|.|+
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~------------i~~v~i~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   89 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQ------------IMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGH   89 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSC------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCC------------eEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            356789999999999999999999999993            4455555569999999999999999998 999999999


Q ss_pred             eeEEeCCCc
Q 002093          539 ILKIKRPKE  547 (967)
Q Consensus       539 ~l~V~rp~~  547 (967)
                      .|.|.+...
T Consensus        90 ~l~v~~a~~   98 (109)
T 1x4g_A           90 VVKCYWGKE   98 (109)
T ss_dssp             ECEEECCCC
T ss_pred             EEEEEecCC
Confidence            999996443

>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

Probab=99.32  E-value=5.3e-12  Score=115.15  Aligned_cols=75  Identities=16%  Similarity=0.068  Sum_probs=61.8

Q ss_pred             CCCEEEEeCCCCcchHHHHH----HHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          462 PMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~----~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ..++|||+|||+.+|+++|+    ++|+.||.+..+..+      .+..+   +|||||+|.+.++|..|+. |||..|.
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~------~~~~~---rg~afV~f~~~~~A~~Ai~~l~g~~~~   78 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELS------PHTDY---QLKAVVQMENLQDAIGAVNSLHRYKIG   78 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEEC------SCCST---TCCEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEE------eCCCC---CeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            45699999999999999999    999999953332111      11111   8999999999999999999 9999999


Q ss_pred             cceeEEeCC
Q 002093          537 GSILKIKRP  545 (967)
Q Consensus       537 Gr~l~V~rp  545 (967)
                      |++|+|.++
T Consensus        79 gr~l~V~~a   87 (96)
T 2dgx_A           79 SKKILVSLA   87 (96)
T ss_dssp             TEEEEEEEC
T ss_pred             CeEEEEEEc
Confidence            999999854

>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}

Probab=99.32  E-value=2.1e-12  Score=122.23  Aligned_cols=79  Identities=24%  Similarity=0.288  Sum_probs=67.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..+.      .+.+ .++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~-~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~   77 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVL------LIKD-RTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKA   77 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEE------EECS-TTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEEC-CCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            4567999999999999999999999999644431      1122 278899999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.++.
T Consensus        78 l~V~~a~   84 (116)
T 2fy1_A           78 IKVEQAK   84 (116)
T ss_dssp             CEEEECC
T ss_pred             EEEEECC
Confidence            9998654

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.31  E-value=2e-12  Score=116.52  Aligned_cols=78  Identities=22%  Similarity=0.209  Sum_probs=66.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||..+|+++|+++|..||.+..+       .+. ..++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~-------~i~-~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~   77 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYA-------DIK-MENGKSKGCGVVKFESPEVAERACRMMNGMKLSGRE   77 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEE-------EEE-ESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEE-------EEE-ccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            456899999999999999999999999964432       111 1467789999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+..
T Consensus        78 l~v~~a~   84 (92)
T 2dgv_A           78 IDVRIDR   84 (92)
T ss_dssp             CCCEECS
T ss_pred             EEEEEcC
Confidence            9998543

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

Probab=99.31  E-value=4.5e-12  Score=123.20  Aligned_cols=79  Identities=16%  Similarity=0.344  Sum_probs=72.3

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .....+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.+
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            3457899999999999999999999999999999998874  34699999999999999999999999999999999987


Q ss_pred             c
Q 002093          649 A  649 (967)
Q Consensus       649 a  649 (967)
                      |
T Consensus       140 A  140 (140)
T 2ku7_A          140 A  140 (140)
T ss_dssp             -
T ss_pred             C
Confidence            5

>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

Probab=99.31  E-value=2e-12  Score=121.43  Aligned_cols=74  Identities=20%  Similarity=0.197  Sum_probs=65.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      +..++|||+|||+.+|+++|+++|..||            .|..+.+..++|||||+|.+.++|..|+. |||..|.|++
T Consensus         8 ~~~~~l~V~nLp~~~te~~L~~~F~~~G------------~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   75 (111)
T 1whx_A            8 RSKTVILAKNLPAGTLAAEIQETFSRFG------------SLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVP   75 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTS------------CEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC------------CEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeE
Confidence            3457999999999999999999999999            34555566789999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        76 l~V~~a~   82 (111)
T 1whx_A           76 LYLEWAP   82 (111)
T ss_dssp             CEEEEEE
T ss_pred             EEEEECC
Confidence            9998643

>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

Probab=99.31  E-value=2.3e-12  Score=119.18  Aligned_cols=78  Identities=22%  Similarity=0.288  Sum_probs=66.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..|| +..+.      .+.+..+ +.++|||||+|.+.++|.+||.|||..|.|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~------i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~   85 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR------LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKR   85 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEE------CCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEE------EecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcE
Confidence            4568999999999999999999999998 44332      2344555 88999999999999999999999999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|...
T Consensus        86 l~V~~a   91 (104)
T 1wi8_A           86 IRVDVA   91 (104)
T ss_dssp             CEEEEC
T ss_pred             EEEEEc
Confidence            999854

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.31  E-value=3.8e-12  Score=119.55  Aligned_cols=80  Identities=18%  Similarity=0.140  Sum_probs=67.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+.       |....++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~-------i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   84 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRAD-------ILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDR   84 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEE-------EEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE-------EEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCC
Confidence            45678999999999999999999999999644321       2222347789999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        85 ~l~v~~a~   92 (114)
T 2do0_A           85 PMHVKMDE   92 (114)
T ss_dssp             ECEEEECS
T ss_pred             EEEEEEcc
Confidence            99998543

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=3.3e-12  Score=120.46  Aligned_cols=80  Identities=14%  Similarity=0.202  Sum_probs=67.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+||. ||+ .|.|+
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~   86 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAV------VITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGR   86 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEE------ESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEE------EEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCE
Confidence            45678999999999999999999999999644332      22444568899999999999999999999 898 89999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        87 ~l~V~~a~   94 (116)
T 2cqd_A           87 KANVNLAY   94 (116)
T ss_dssp             ECEEEEST
T ss_pred             EEEEEEcc
Confidence            99998643

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=1.9e-12  Score=119.45  Aligned_cols=78  Identities=22%  Similarity=0.250  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..||.+..+.      .+.+  ++.++|||||+|.+.++|..||. |||..|.|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   84 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAK------VMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKP   84 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEE------EEEC--SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEcC--CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            4678999999999999999999999999643321      1222  67889999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        85 l~V~~a~   91 (103)
T 2d9p_A           85 LYVALAQ   91 (103)
T ss_dssp             CEEEECS
T ss_pred             EEEEEec
Confidence            9998644

>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

Probab=99.31  E-value=1.1e-12  Score=113.53  Aligned_cols=74  Identities=16%  Similarity=0.216  Sum_probs=64.3

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+.+++..|.|+.|.|.+
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~   74 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIE------LPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEEC------CCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            599999999999999999999999644331      23455668899999999999999999999999999999999873

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

Probab=99.31  E-value=4.8e-12  Score=121.92  Aligned_cols=77  Identities=19%  Similarity=0.268  Sum_probs=64.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHH----HHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          461 RPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~----~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      .+.++|||+|||+.+++++|+    ++|++||.+..+         .-..++.++|||||+|.+.++|..|+. |||..|
T Consensus        27 ~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v---------~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l   97 (127)
T 2a3j_A           27 EPSQVVLITNINPEVPKEKLQALLYALASSQGDILDI---------VVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPF   97 (127)
T ss_dssp             SCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEE---------EECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEE---------EeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEe
Confidence            446799999999999999876    699999964321         112357889999999999999999998 999999


Q ss_pred             ecceeEEeCCC
Q 002093          536 SGSILKIKRPK  546 (967)
Q Consensus       536 ~Gr~l~V~rp~  546 (967)
                      .|++|+|.+..
T Consensus        98 ~gr~l~V~~a~  108 (127)
T 2a3j_A           98 QGNPLVITFSE  108 (127)
T ss_dssp             TTSCCEEEECC
T ss_pred             CCCEEEEEEcc
Confidence            99999998643

>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

Probab=99.31  E-value=5.1e-12  Score=118.86  Aligned_cols=81  Identities=14%  Similarity=0.258  Sum_probs=71.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCe----eEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPL----KAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V----~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ...++|||+|||..+++++|+++|++||.|    ..+.+.  .+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~  100 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM--TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIE  100 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE--CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC--CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            356899999999999999999999999998    445444  45679999999999999999999999999999999999


Q ss_pred             EcccCCC
Q 002093          648 QAVLDGS  654 (967)
Q Consensus       648 ~a~~~~~  654 (967)
                      ++.+...
T Consensus       101 ~a~~~~~  107 (115)
T 2cpx_A          101 FGKNKKQ  107 (115)
T ss_dssp             ECCCCSC
T ss_pred             EccCCCC
Confidence            9976543

>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

Probab=99.31  E-value=1.7e-12  Score=125.41  Aligned_cols=80  Identities=25%  Similarity=0.314  Sum_probs=68.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+||. |||..|.|+
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~------i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~  116 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVS------IVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR  116 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEE------EECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            35568999999999999999999999999644321      22444568899999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|.|.+.
T Consensus       117 ~l~V~~a  123 (129)
T 2kxn_B          117 RIRVDFS  123 (129)
T ss_dssp             CCEESCC
T ss_pred             EEEEEEe
Confidence            9999854

>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

Probab=99.31  E-value=6.6e-12  Score=115.75  Aligned_cols=79  Identities=23%  Similarity=0.342  Sum_probs=65.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+..+      .  ....++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~------~--~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   83 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEII------F--NERGSKGFGFVTFENSADADRAREKLHGTVVEGR   83 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEE------C--CTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE------e--cCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            4567899999999999999999999999963332111      1  123479999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        84 ~l~v~~a~   91 (103)
T 2cq3_A           84 KIEVNNAT   91 (103)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEcc
Confidence            99998643

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=6e-13  Score=118.27  Aligned_cols=78  Identities=12%  Similarity=0.277  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+.++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|++.++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            357899999999999999999999999999999998874  456999999999999999999999999999999887654

>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

Probab=99.30  E-value=5.7e-12  Score=113.94  Aligned_cols=78  Identities=21%  Similarity=0.327  Sum_probs=69.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCC-eeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCC-CccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG-LKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~-V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG-~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||. |..+.+.     ++|||||+|.+.++|.+|+..||| ..|+|+.|.|.++
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   80 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEc
Confidence            35689999999999999999999999999 6655552     489999999999999999999999 9999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        81 ~~~~~   85 (93)
T 2cqh_A           81 VSKKL   85 (93)
T ss_dssp             CCCCC
T ss_pred             cCccc
Confidence            76543

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

Probab=99.30  E-value=3.7e-12  Score=123.80  Aligned_cols=79  Identities=27%  Similarity=0.319  Sum_probs=67.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+|+. |||..|.|+
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~  133 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ------IPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGR  133 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------CCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEE------EeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            35678999999999999999999999999644331      22444668899999999999999999998 999999999


Q ss_pred             eeEEeC
Q 002093          539 ILKIKR  544 (967)
Q Consensus       539 ~l~V~r  544 (967)
                      .|+|.+
T Consensus       134 ~l~v~~  139 (140)
T 2ku7_A          134 TIRVNL  139 (140)
T ss_dssp             EEEEEC
T ss_pred             EEEEEe
Confidence            999974

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=2.7e-12  Score=120.02  Aligned_cols=78  Identities=23%  Similarity=0.356  Sum_probs=65.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||..+|+++|+++|+.||.+..+..+      .+  .+.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~------~~--~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   97 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEII------FN--ERGSKGFGFVTFENSADADRAREKLHGTVVEGR   97 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEEC------CB--TTBCTTEEEEECCCSHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEE------EC--CCCCceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4567899999999999999999999999965443211      11  24579999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|.|.+.
T Consensus        98 ~l~V~~a  104 (109)
T 2err_A           98 KIEVNNA  104 (109)
T ss_dssp             ECEEEEC
T ss_pred             EEEEEEC
Confidence            9999853

>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

Probab=99.30  E-value=2.2e-12  Score=121.66  Aligned_cols=81  Identities=14%  Similarity=0.105  Sum_probs=73.3

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCe-eEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPL-KAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V-~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      +....+|||+|||..+++++|+++|+.||.| ..|.|+.+. +.++|||||+|.+.++|.+||.. ||..|+|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~   90 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHV   90 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEE
Confidence            3456899999999999999999999999999 889998875 34699999999999999999986 99999999999999


Q ss_pred             cccC
Q 002093          649 AVLD  652 (967)
Q Consensus       649 a~~~  652 (967)
                      +.+.
T Consensus        91 a~~~   94 (114)
T 2cpy_A           91 VTLE   94 (114)
T ss_dssp             ECHH
T ss_pred             CCHH
Confidence            8654

>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*

Probab=99.30  E-value=2.3e-12  Score=123.30  Aligned_cols=79  Identities=18%  Similarity=0.169  Sum_probs=67.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+.
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   93 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIH------LNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQP   93 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            4567999999999999999999999999643321      22444578889999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        94 l~v~~a   99 (126)
T 3ex7_B           94 ISVDWC   99 (126)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            999854

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

Probab=99.30  E-value=2.2e-12  Score=119.07  Aligned_cols=78  Identities=22%  Similarity=0.367  Sum_probs=67.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHH-hhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce-eec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNN-FLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS-FSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~-fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~-l~G  537 (967)
                      .+.++|||+|||+.+|+++|+++|.. ||.+..+.      .+.+. ++.++|||||+|.+.++|..||. |||.. |.|
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~------i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g   79 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGK------VVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGS   79 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEE------EEECT-TCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEE------EEECC-CCCccceEEEEECCHHHHHHHHHHccCCcccCC
Confidence            45689999999999999999999999 99644331      22333 78899999999999999999999 99999 999


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      ++|.|.+.
T Consensus        80 ~~l~v~~a   87 (104)
T 2dhg_A           80 KPVRLSVA   87 (104)
T ss_dssp             SCCCCCBC
T ss_pred             EeEEEEEc
Confidence            99999854

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.30  E-value=1.8e-12  Score=120.01  Aligned_cols=81  Identities=15%  Similarity=0.211  Sum_probs=69.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||..|+..|.|+.
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~   86 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCV------IMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRN   86 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEE------EEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEE
Confidence            35678999999999999999999999999644331      234446788899999999999999999999999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        87 l~V~~a~   93 (105)
T 2dh8_A           87 IDPKPCT   93 (105)
T ss_dssp             EBCCCSC
T ss_pred             EEEEEcc
Confidence            9998644

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=5.1e-12  Score=119.22  Aligned_cols=81  Identities=19%  Similarity=0.281  Sum_probs=73.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+||.. +|..|+|+.|.|.++.
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~  104 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAV  104 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECC
Confidence            35899999999999999999999999999999999875  44699999999999999999987 9999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus       105 ~~~~  108 (116)
T 1x4b_A          105 AREE  108 (116)
T ss_dssp             SCCC
T ss_pred             CCcc
Confidence            6543

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.30  E-value=2.4e-12  Score=122.22  Aligned_cols=79  Identities=13%  Similarity=0.140  Sum_probs=72.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCC---eeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~---V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ....+|||+|||..+|+++|+++|+.||.   |..|.|+.+.. .++|||||+|.+.++|.+||+ |||..|+|+.|.|.
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~   93 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVF   93 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEE
Confidence            45689999999999999999999999999   88999988754 458999999999999999999 99999999999999


Q ss_pred             Eccc
Q 002093          648 QAVL  651 (967)
Q Consensus       648 ~a~~  651 (967)
                      ++.+
T Consensus        94 ~a~~   97 (118)
T 2db1_A           94 KSHR   97 (118)
T ss_dssp             EECH
T ss_pred             ECCH
Confidence            9854

>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

Probab=99.30  E-value=1.9e-12  Score=126.25  Aligned_cols=82  Identities=24%  Similarity=0.301  Sum_probs=68.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+.++..+.   .+.+.. ++++|||||+|.+.++|.+||.|||..|.|+.
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~---i~~d~~-g~srG~aFV~F~~~e~a~~Al~~~g~~l~gr~  116 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVH---FIYTRE-GRQSGEAFVELGSEDDVKMALKKDRESMGHRY  116 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEE---EEECSS-SCEEEEEEEECSSHHHHHHHHTTTEEESSSSE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEE---EEECCC-CCCCeEEEEEECCHHHHHHHHhcCCCEECCEE
Confidence            35568999999999999999999999999632222221   234444 89999999999999999999999999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus       117 i~V~~a  122 (136)
T 2hgl_A          117 IEVFKS  122 (136)
T ss_dssp             EEEEEC
T ss_pred             EEEEEC
Confidence            999853

>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}

Probab=99.30  E-value=1.5e-12  Score=121.28  Aligned_cols=81  Identities=15%  Similarity=0.269  Sum_probs=67.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..||...++..+.   .+.+.. +.++|||||+|.+.++|..||.+|+..|.|+.|
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~---i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i   84 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIH---FLLNRD-GKRRGDALIEMESEQDVQKALEKHRMYMGQRYV   84 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEE---CCCCTT-STTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEE---EEECCC-CCEeeEEEEEECCHHHHHHHHHhCcceeCCeEE
Confidence            4568999999999999999999999998632233332   334444 899999999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|.+.
T Consensus        85 ~V~~a   89 (107)
T 2lmi_A           85 EVYEI   89 (107)
T ss_dssp             CCEEC
T ss_pred             EEEEC
Confidence            99853

>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

Probab=99.29  E-value=6.7e-12  Score=114.88  Aligned_cols=71  Identities=20%  Similarity=0.265  Sum_probs=62.7

Q ss_pred             CCCCCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          460 NRPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       460 ~~~~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ..+.++|||+|||+ .+|+++|+++|+.||.            |..+.+  .+|||||+|.+.++|..|+. |||..|.|
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~------------v~~v~i--~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   84 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGH------------IMQINI--KNAFGFIQFDNPQSVRDAIEXESQEMNFG   84 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSC------------EEEEEE--CSSEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCC------------EEEEEE--eCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35678999999998 9999999999999994            334443  48999999999999999999 99999999


Q ss_pred             ceeEEeC
Q 002093          538 SILKIKR  544 (967)
Q Consensus       538 r~l~V~r  544 (967)
                      +.|.|..
T Consensus        85 ~~l~V~~   91 (97)
T 2xnq_A           85 KKLILEV   91 (97)
T ss_dssp             EECEEEE
T ss_pred             EEEEEEe
Confidence            9999985

>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

Probab=99.29  E-value=3.1e-12  Score=115.72  Aligned_cols=74  Identities=23%  Similarity=0.368  Sum_probs=62.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccC-ceeecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng-~~l~Gr  538 (967)
                      ...++|||+|||+++|+++|+++|..||.+..           .+.+ .++|||||+|.+.++|..|+. ||| ..|.|+
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~-----------~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~   73 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLA-----------GQVL-LKSGYAFVDYPDQNWAIRAIETLSGKVELHGK   73 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCS-----------SCEE-EETTEEEECCSCHHHHHHHHHHHTTTCEETTE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceE-----------EEEE-cCCCEEEEEECCHHHHHHHHHHccCCeeECCE
Confidence            45679999999999999999999999995211           1111 368999999999999999999 999 999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|.+..
T Consensus        74 ~l~v~~a~   81 (93)
T 2cqh_A           74 IMEVDYSV   81 (93)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEcc
Confidence            99998643

>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

Probab=99.29  E-value=1.2e-12  Score=125.33  Aligned_cols=79  Identities=19%  Similarity=0.311  Sum_probs=68.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.|
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~------~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i   96 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDS------IYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFI   96 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTT------CEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCB
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccce------EEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEE
Confidence            345799999999999999999999999964432      13456678899999999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|.+.
T Consensus        97 ~V~~a  101 (124)
T 1wel_A           97 QVHPI  101 (124)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            99853

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

Probab=99.29  E-value=2.5e-12  Score=117.22  Aligned_cols=77  Identities=16%  Similarity=0.259  Sum_probs=70.8

Q ss_pred             CCCceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+.++|||+|||. .+++++|+++|++||.|..|.|      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   81 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSS   81 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEE------ETTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcC
Confidence            3578999999998 9999999999999999999998      38999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        82 ~~~~   85 (96)
T 2kvi_A           82 SNAR   85 (96)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            6543

>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

Probab=99.29  E-value=1.1e-11  Score=115.74  Aligned_cols=75  Identities=23%  Similarity=0.364  Sum_probs=69.9

Q ss_pred             CCceEEEcCCCcc-cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~-~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..++|||+|||.. +++++|+++|++||.|..|.|      ++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   99 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE   99 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            3579999999999 999999999999999999988      589999999999999999999999999999999999965


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       100 ~~  101 (110)
T 1wf1_A          100 PK  101 (110)
T ss_dssp             CC
T ss_pred             CC
Confidence            33

>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

Probab=99.29  E-value=1.9e-12  Score=119.37  Aligned_cols=79  Identities=24%  Similarity=0.391  Sum_probs=67.2

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   80 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFR------LVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL   80 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEE------EEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCB
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEE------EEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEE
Confidence            457999999999999999999999999643321      22344567889999999999999999998 99999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      .|.++.
T Consensus        81 ~v~~a~   86 (104)
T 1p1t_A           81 RVDNAA   86 (104)
T ss_dssp             EEEETT
T ss_pred             EEEeCC
Confidence            998643

>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

Probab=99.29  E-value=8.2e-12  Score=116.46  Aligned_cols=73  Identities=26%  Similarity=0.343  Sum_probs=62.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--  537 (967)
                      ...++|||+|||+.+|+++|+++|..||.            |..+.+... |||||+|.+.++|..||+ |||..|.|  
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~------------i~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   79 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHMREAGD------------VCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSHE   79 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHHGGGSC------------EEEEEEETT-TEEEEEESSHHHHHHHHHHSSSEEEECTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------EeEEEEecC-CEEEEEECCHHHHHHHHHHHCcCCccCCc
Confidence            45679999999999999999999999994            333333333 999999999999999999 99999999  


Q ss_pred             ---ceeEEeCCC
Q 002093          538 ---SILKIKRPK  546 (967)
Q Consensus       538 ---r~l~V~rp~  546 (967)
                         +.|+|..+.
T Consensus        80 ~~~~~i~V~~a~   91 (108)
T 1x4c_A           80 GETAYIRVKVDG   91 (108)
T ss_dssp             SCEEEEEEEESS
T ss_pred             CcceEEEEEeCC
Confidence               999998543

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=3.4e-12  Score=117.25  Aligned_cols=76  Identities=28%  Similarity=0.414  Sum_probs=66.5

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|..||.+      .   .+.+ .++.++|||||+|.+.++|.+||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v------~---~~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   81 (101)
T 2fc9_A           12 SGESKTLVLSNLSYSATEETLQEVFEKATFI------K---VPQN-QNGKSKGYAFIEFASFEDAKEALNSCNKREIEGR   81 (101)
T ss_dssp             SCCCSEEEEESCCTTCCHHHHHHHCSSCSEE------E---CCBC-SSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE------E---EEEC-CCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence            4567899999999999999999999999852      1   1223 678899999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|.|.+.
T Consensus        82 ~l~v~~a   88 (101)
T 2fc9_A           82 AIRLELQ   88 (101)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEEc
Confidence            9999854

>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

Probab=99.29  E-value=1.4e-11  Score=113.53  Aligned_cols=81  Identities=11%  Similarity=0.205  Sum_probs=72.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+.  ++..|+|+.|.|.++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEec
Confidence            356889999999999999999999999999999999885  4468999999999999999998  578999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus        91 ~~~~~   95 (103)
T 2cqg_A           91 NSKQS   95 (103)
T ss_dssp             CTTCC
T ss_pred             CCCCc
Confidence            76543

>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

Probab=99.29  E-value=1.3e-12  Score=122.94  Aligned_cols=78  Identities=21%  Similarity=0.256  Sum_probs=67.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||..+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||.|||..|.|+.|
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l   96 (114)
T 2cq4_A           23 RDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVR------IISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPI   96 (114)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEE------ECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEE------EEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEE
Confidence            3457999999999999999999999999644332      2244556889999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|.+
T Consensus        97 ~V~~  100 (114)
T 2cq4_A           97 IVQA  100 (114)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            9985

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=1.5e-12  Score=122.83  Aligned_cols=79  Identities=20%  Similarity=0.351  Sum_probs=67.6

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||.+|+..|.|+.|.
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~   99 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCV------VMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVE   99 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEE------EECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEE
Confidence            357999999999999999999999999644332      23444668899999999999999999999999999999999


Q ss_pred             EeCCC
Q 002093          542 IKRPK  546 (967)
Q Consensus       542 V~rp~  546 (967)
                      |.++.
T Consensus       100 V~~a~  104 (116)
T 1x4b_A          100 PKRAV  104 (116)
T ss_dssp             EECCS
T ss_pred             EEECC
Confidence            99643

>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

Probab=99.29  E-value=4.2e-12  Score=119.29  Aligned_cols=80  Identities=11%  Similarity=0.189  Sum_probs=72.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCcc--------CCe
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKV--------GGQ  642 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~--------~Gr  642 (967)
                      ...++|||+|||..+++++|+++|+.||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|        .++
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~  102 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE  102 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCC
Confidence            356899999999999999999999999999999999885 34589999999999999999999999999        678


Q ss_pred             EEEEEEccc
Q 002093          643 VLTAVQAVL  651 (967)
Q Consensus       643 ~I~V~~a~~  651 (967)
                      +|.|.++.|
T Consensus       103 ~l~v~~a~p  111 (114)
T 1x5o_A          103 PLLCKFSGP  111 (114)
T ss_dssp             CBEEEECCC
T ss_pred             ceeEEccCC
Confidence            899999865

>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

Probab=99.29  E-value=6.6e-13  Score=126.22  Aligned_cols=79  Identities=19%  Similarity=0.222  Sum_probs=63.3

Q ss_pred             ccccccccCCCcchhcccccccCCCCccccccccccccccccccCCCCCCCCCCC-Cccc----------------ccce
Q 002093          861 QLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQ-GHIF----------------EPGC  923 (967)
Q Consensus       861 ~~~c~~~~n~f~~~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~~~~~~e~~~-~~v~----------------~~G~  923 (967)
                      ++.|++|.|||+|.+ +.                        .|+++|+.++|++ |.|.                ..|+
T Consensus        19 ps~vl~L~Nm~~~~e-l~------------------------ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~   73 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKD-ID------------------------DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVK   73 (118)
T ss_dssp             SCCEEEEESCSCGGG-CC------------------------TTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEE
T ss_pred             CCCEEEEECCCCHHH-HH------------------------HHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEE
Confidence            578999999988753 11                        2344556667765 3332                1289


Q ss_pred             EEEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHHhh
Q 002093          924 VFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR  964 (967)
Q Consensus       924 VyVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~~  964 (967)
                      |||+|.+.++|.+|+++||||||+||+|.|.|++.+.|+..
T Consensus        74 ~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~~~~~~f~~~  114 (118)
T 3ue2_A           74 IFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNS  114 (118)
T ss_dssp             EEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHTT
T ss_pred             EEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcChHhcccc
Confidence            99999999999999999999999999999999999999863

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=4.7e-12  Score=116.33  Aligned_cols=80  Identities=15%  Similarity=0.206  Sum_probs=70.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...++|||+|||..+++++|+++|++||.|   .++.+ .+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   89 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQG   89 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcC
Confidence            457899999999999999999999999977   45544 34569999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002093          651 LDGS  654 (967)
Q Consensus       651 ~~~~  654 (967)
                      +...
T Consensus        90 ~~~~   93 (101)
T 2fc9_A           90 PRGS   93 (101)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7543

>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

Probab=99.29  E-value=2.8e-12  Score=118.69  Aligned_cols=81  Identities=12%  Similarity=0.207  Sum_probs=71.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +....+|||+|||..+|+++|+++|++||.+ .|.|+.+. +.++|||||+|.+.++|.+||+ +||..|+|+.|.|..+
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~~   89 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLN   89 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            3456899999999999999999999999965 89998885 3458999999999999999995 8999999999999988


Q ss_pred             ccCC
Q 002093          650 VLDG  653 (967)
Q Consensus       650 ~~~~  653 (967)
                      .+..
T Consensus        90 ~~~~   93 (102)
T 1wez_A           90 STAG   93 (102)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6543

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=5e-12  Score=117.16  Aligned_cols=80  Identities=11%  Similarity=0.228  Sum_probs=71.9

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||..+++++|+++|+.||.|.. |.|+.+ .+.++|||||+|.+.++|.+||.. +|..|+|+.|.|.++
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~   91 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKS   91 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEEC
Confidence            45689999999999999999999999999987 888777 345699999999999999999986 999999999999988


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .+.
T Consensus        92 ~~~   94 (104)
T 1wg5_A           92 SRA   94 (104)
T ss_dssp             CTT
T ss_pred             CHH
Confidence            653

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.28  E-value=2.9e-12  Score=118.77  Aligned_cols=78  Identities=19%  Similarity=0.284  Sum_probs=66.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..  .+.   .+.+ .+++++|||||+|.+.++|.+||.+|+..|.|+.|
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~--~v~---i~~~-~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i   86 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPN--GMT---LPVD-FQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYI   86 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEE--EEE---CCBC-SSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcce--eEE---EEEC-CCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEE
Confidence            45679999999999999999999999996332  021   2234 67899999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus        87 ~v~~   90 (104)
T 1wg5_A           87 EIFK   90 (104)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9974

>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

Probab=99.28  E-value=2.5e-12  Score=111.26  Aligned_cols=73  Identities=21%  Similarity=0.341  Sum_probs=67.3

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.++|.+|+. ++|..|+|+.|.|.+|
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            58999999999999999999999999999998875  3569999999999999999998 5999999999999875

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

Probab=99.28  E-value=1.6e-12  Score=113.02  Aligned_cols=74  Identities=15%  Similarity=0.271  Sum_probs=63.7

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. ++ ..|.|++|.|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v   73 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECL------VMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDP   73 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEE------EECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEE
Confidence            4799999999999999999999999644432      22344568899999999999999999999 77 9999999999


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      .+
T Consensus        74 ~~   75 (77)
T 1uaw_A           74 KV   75 (77)
T ss_dssp             EE
T ss_pred             Ee
Confidence            74

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

Probab=99.28  E-value=5.6e-12  Score=117.83  Aligned_cols=72  Identities=33%  Similarity=0.405  Sum_probs=62.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||..+|+++|+++|+.||.+.            .+.+.  +|||||+|.+.++|..|+. |||..|.|+
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~------------~v~i~--kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   93 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMK------------EVKIL--NGFAFVEFEEAESAAKAIEEVHGKSFANQ   93 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCC------------EEEEE--TTEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEE------------EEEEE--CCEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            45678999999999999999999999999522            22222  8999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      .|.|.+.
T Consensus        94 ~l~V~~a  100 (108)
T 2jvo_A           94 PLEVVYS  100 (108)
T ss_dssp             ECEEESC
T ss_pred             EEEEEEe
Confidence            9999853

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.28  E-value=2.4e-12  Score=117.08  Aligned_cols=78  Identities=12%  Similarity=0.217  Sum_probs=70.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ...+|||+|||..+++++|+++|+.||.|..+   ...+.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus        15 ~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~   91 (96)
T 1fjc_A           15 AARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK   91 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe---CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCC
Confidence            46899999999999999999999999988766   344557999999999999999999999999999999999999765


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        92 ~   92 (96)
T 1fjc_A           92 G   92 (96)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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

Probab=99.28  E-value=2.6e-12  Score=120.80  Aligned_cols=79  Identities=15%  Similarity=0.177  Sum_probs=70.6

Q ss_pred             cCCCceEEEcCCCcc-cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCC--CccCCeEEEEE
Q 002093          571 KDSPHKIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAV  647 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~-~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG--~~~~Gr~I~V~  647 (967)
                      ..+..+|||+|||.. +++++|+++|++||.|..|.|++    ++|||||+|.+.++|..|+..|++  ..|.|+.|.|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~   97 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   97 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            345689999999998 99999999999999999999975    489999999999999999998864  66999999999


Q ss_pred             EcccCC
Q 002093          648 QAVLDG  653 (967)
Q Consensus       648 ~a~~~~  653 (967)
                      ++....
T Consensus        98 ~a~~~~  103 (112)
T 1x4f_A           98 LSEKYK  103 (112)
T ss_dssp             EECSCS
T ss_pred             ECcccc
Confidence            996543

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.28  E-value=9.5e-13  Score=121.08  Aligned_cols=78  Identities=22%  Similarity=0.282  Sum_probs=65.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeee-eecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC-VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~-~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|+.|| +..+.      .+.+. .++.++|||||+|.+.++|..||.|||..|.|+.
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~------i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~   89 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR------LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRR   89 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EEEEE------CSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEE------EEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeE
Confidence            4568999999999999999999999998 54432      22333 4788999999999999999999999999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        90 l~V~~a   95 (100)
T 2j76_E           90 IRVDVA   95 (100)
T ss_dssp             CCCEEC
T ss_pred             EEEEec
Confidence            999853

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.28  E-value=1.3e-12  Score=117.31  Aligned_cols=76  Identities=25%  Similarity=0.373  Sum_probs=65.1

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.+ |..|+. |||..|.|++|.|
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V   74 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVK------LIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRV   74 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEE------ECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEE------EEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEE
Confidence            5899999999999999999999999644432      2244456889999999999999 999999 9999999999999


Q ss_pred             eCCC
Q 002093          543 KRPK  546 (967)
Q Consensus       543 ~rp~  546 (967)
                      .++.
T Consensus        75 ~~a~   78 (90)
T 2ki2_A           75 TEAN   78 (90)
T ss_dssp             EEC-
T ss_pred             EEcC
Confidence            8643

>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

Probab=99.27  E-value=6.8e-12  Score=115.66  Aligned_cols=81  Identities=23%  Similarity=0.251  Sum_probs=67.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. ++..|.|+.
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~   84 (103)
T 2cqg_A           12 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQ------VKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRW   84 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEE------EEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEE
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEE------EEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeE
Confidence            45678999999999999999999999999644321      23444568899999999999999999999 577899999


Q ss_pred             eEEeCCCc
Q 002093          540 LKIKRPKE  547 (967)
Q Consensus       540 l~V~rp~~  547 (967)
                      |.|.+...
T Consensus        85 l~v~~a~~   92 (103)
T 2cqg_A           85 CDCKLPNS   92 (103)
T ss_dssp             EEEECCCT
T ss_pred             EEEEecCC
Confidence            99986443

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=1.2e-11  Score=111.76  Aligned_cols=73  Identities=26%  Similarity=0.387  Sum_probs=62.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+            ..+.+.  ++||||+|.+.++|..|+. |||..|.|+
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v------------~~v~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g~   72 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKFEEYGPV------------IECDIV--KDYAFVHMERAEDAVEAIRGLDNTEFQGK   72 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTSCC------------CEEEEC--SSEEEEEESCHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEE--CCEEEEEECCHHHHHHHHHHhCCCeeCCc
Confidence            3556899999999999999999999999942            333332  5699999999999999998 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|.+..
T Consensus        73 ~l~V~~a~   80 (92)
T 2dgt_A           73 RMHVQLST   80 (92)
T ss_dssp             EEEEEESS
T ss_pred             EEEEEEcc
Confidence            99998643

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.27  E-value=6.4e-12  Score=120.04  Aligned_cols=79  Identities=23%  Similarity=0.237  Sum_probs=67.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..+.      .+.+. ++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~------i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~  105 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAA------VDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGRP  105 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEE------EECCS-SSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE------EEECC-CCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            4567999999999999999999999999644331      22333 78899999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|..+.
T Consensus       106 l~V~~a~  112 (124)
T 2kt5_A          106 MDIQLVA  112 (124)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEeC
Confidence            9998543

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

Probab=99.27  E-value=5.9e-12  Score=114.46  Aligned_cols=78  Identities=14%  Similarity=0.256  Sum_probs=70.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEE-EEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAY-HFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v-~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...+|||+|||..+++++|+++|++||.|..| .|+.+..  .|.|||+|.+.++|.+|+..|||..|+|+.|.|.++.+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~--~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   91 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE--TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPD   91 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS--SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC--CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCc
Confidence            46899999999999999999999999999999 4777643  34599999999999999999999999999999999977


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        92 ~   92 (96)
T 2e44_A           92 E   92 (96)
T ss_dssp             C
T ss_pred             c
Confidence            5

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.27  E-value=3.2e-12  Score=119.57  Aligned_cols=80  Identities=14%  Similarity=0.228  Sum_probs=64.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||..++..|.|+.
T Consensus        22 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~------i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~   95 (109)
T 2rs2_A           22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECL------VMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKT   95 (109)
T ss_dssp             ----CCEEEESCCTTCCHHHHHHHHTTTSCEEEEE------ECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEE------EEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEE
Confidence            45678999999999999999999999999644332      224445688999999999999999999995569999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        96 l~V~~a  101 (109)
T 2rs2_A           96 IDPKVA  101 (109)
T ss_dssp             EEEEEC
T ss_pred             EEEEEc
Confidence            999853

>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* ...

Probab=99.27  E-value=6.7e-12  Score=114.21  Aligned_cols=77  Identities=23%  Similarity=0.341  Sum_probs=64.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHH----HHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce
Q 002093          460 NRPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~----~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      ..+.++|||+|||..+|+++|+    ++|+.||.+..+         .-..++.++|||||+|.+.++|..|+. |||..
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v---------~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~   75 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDI---------LVSRSLKMRGQAFVIFKEVSSATNALRSMQGFP   75 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEE---------ECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEE---------EEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCE
Confidence            3567899999999999999999    999999953321         111356789999999999999999999 99999


Q ss_pred             eecceeEEeCC
Q 002093          535 FSGSILKIKRP  545 (967)
Q Consensus       535 l~Gr~l~V~rp  545 (967)
                      |.|++|.|.++
T Consensus        76 ~~g~~l~v~~a   86 (97)
T 1nu4_A           76 FYDKPMRIQYA   86 (97)
T ss_dssp             ETTEECEEEEC
T ss_pred             ECCcEEEEEEc
Confidence            99999999854

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=4.3e-12  Score=114.28  Aligned_cols=76  Identities=22%  Similarity=0.404  Sum_probs=65.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..| .+..   +.   .+.+ .++.++|||||+|.+.++|.+||.|||..|.|+.|
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~---v~---i~~~-~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i   79 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVA---IR---IVRN-AHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYI   79 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSE---EE---EEEC-TTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceE---EE---EEEC-CCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEE
Confidence            456899999999999999999999988 4333   21   2233 67888999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|.+
T Consensus        80 ~v~~   83 (91)
T 2dgw_A           80 EVFR   83 (91)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9984

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.27  E-value=3.7e-12  Score=121.50  Aligned_cols=79  Identities=19%  Similarity=0.269  Sum_probs=67.7

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||.|||..|.|+.|.
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~  108 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRIT------ILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIK  108 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEE------EEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEE
Confidence            357999999999999999999999999644321      22444678899999999999999999999999999999999


Q ss_pred             EeCCC
Q 002093          542 IKRPK  546 (967)
Q Consensus       542 V~rp~  546 (967)
                      |.+..
T Consensus       109 V~~a~  113 (124)
T 2jwn_A          109 VLPKR  113 (124)
T ss_dssp             EEESS
T ss_pred             EEECC
Confidence            98643

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

Probab=99.27  E-value=9.5e-12  Score=112.87  Aligned_cols=77  Identities=21%  Similarity=0.327  Sum_probs=67.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ...+|||+|||..+++++|+++|++||.|..|  +.+..+++ ||||+|.+.++|.+|+. |||..|+|+.|.|.++.+.
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~-~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~   82 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGV-FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQK   82 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCC-EEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCc-EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcC
Confidence            45799999999999999999999999999987  44544444 99999999999999999 9999999999999987554


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        83 ~   83 (94)
T 2e5g_A           83 E   83 (94)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=1.2e-11  Score=111.20  Aligned_cols=73  Identities=21%  Similarity=0.318  Sum_probs=63.0

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.            |..+.+.  ++||||+|.+.++|..|+. |||..|.|+
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~------------v~~~~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g~   71 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGR------------VIECDVV--KDYAFVHMEKEADAKAAIAQLNGKEVKGK   71 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSC------------EEEEEEC--SSCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCC------------EEEEEEE--CCEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            355789999999999999999999999994            3333333  5699999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        72 ~l~v~~a~   79 (90)
T 2dnp_A           72 RINVELST   79 (90)
T ss_dssp             ECEEEESC
T ss_pred             EEEEEECC
Confidence            99998643

>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

Probab=99.27  E-value=4.7e-12  Score=134.34  Aligned_cols=79  Identities=15%  Similarity=0.170  Sum_probs=72.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcC--CeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G--~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ...+|||+||+..+|+++|+++|++||  .|..|.|+.++  +.++|||||+|.+.++|.+||+.|||..|.|+.|.|.+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            457899999999999999999999999  99999999985  44689999999999999999999999999999999999


Q ss_pred             ccc
Q 002093          649 AVL  651 (967)
Q Consensus       649 a~~  651 (967)
                      +.+
T Consensus       147 a~~  149 (229)
T 3q2s_C          147 VNK  149 (229)
T ss_dssp             CCH
T ss_pred             CCC
Confidence            854

>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}

Probab=99.27  E-value=5e-12  Score=123.89  Aligned_cols=84  Identities=24%  Similarity=0.273  Sum_probs=69.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcc--cccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~--~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+.  .+.   .|....++.++|||||+|.+.++|..||. |||..|.
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~---di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~  118 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMF---DIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLF  118 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHC---EEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccee---eEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeC
Confidence            34568999999999999999999999999755431  110   12334689999999999999999999999 9999999


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|.|.++.
T Consensus       119 g~~l~V~~a~  128 (143)
T 3egn_A          119 GKPMVVQFAR  128 (143)
T ss_dssp             TEECEEEECC
T ss_pred             CcEEEEEECC
Confidence            9999998543

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=2e-11  Score=111.76  Aligned_cols=75  Identities=31%  Similarity=0.351  Sum_probs=63.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.  |        .|..+..  .+|||||+|.+.++|..|+. |||..|.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~--g--------~v~~~~~--~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   79 (99)
T 2cpd_A           12 MSSVKILYVRNLMLSTSEEMIEKEFNNIKP--G--------AVERVKK--IRDYAFVHFSNREDAVEAMKALNGKVLDGS   79 (99)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTST--T--------CEEEEEE--CSSEEEEEESSHHHHHHHHHHHSSEEETTE
T ss_pred             cCCcCEEEEeCCCCCCCHHHHHHHHHhcCC--c--------ceEEEEE--eCCeEEEEeCCHHHHHHHHHHhCCCEeCCc
Confidence            356789999999999999999999999942  1        2333333  47899999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.+..
T Consensus        80 ~l~v~~a~   87 (99)
T 2cpd_A           80 PIEVTLAK   87 (99)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEECC
Confidence            99998643

>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

Probab=99.26  E-value=1.1e-11  Score=115.30  Aligned_cols=81  Identities=16%  Similarity=0.165  Sum_probs=66.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhh-hcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc--Cceee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLL-SSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSFS  536 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~-~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln--g~~l~  536 (967)
                      .+.++|||+|||+.+|+++|+++|..||. +..+..+     ..+..++.++|||||+|.+.++|..|+. ||  +..|.
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~-----~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~   80 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVY-----ASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW   80 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECC-----SSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBT
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEE-----ccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceec
Confidence            45679999999999999999999999985 3332111     1344567899999999999999999999 95  59999


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |+.|+|.++.
T Consensus        81 g~~l~V~~a~   90 (109)
T 2dis_A           81 GHQIAVDWAE   90 (109)
T ss_dssp             TBCCEEEESC
T ss_pred             CCeEEEEEcC
Confidence            9999998654

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.26  E-value=1.7e-12  Score=119.37  Aligned_cols=79  Identities=18%  Similarity=0.251  Sum_probs=70.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|.. .++.+  .+.++|||||+|.+.++|.+|++ |||..|.|+.|.|.++.
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~   93 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPK   93 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcC
Confidence            4689999999999999999999999998877 44444  34579999999999999999998 99999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        94 ~~~   96 (101)
T 1fj7_A           94 GRD   96 (101)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>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

Probab=99.26  E-value=3.1e-12  Score=124.66  Aligned_cols=79  Identities=13%  Similarity=0.136  Sum_probs=72.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCC---eeEEEEeecCC-CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~---V~~v~l~~d~~-~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ....+|||+|||+.+|+++|+++|+.||.   |..|.|+.+.. .++|||||+|.+.++|.+||+ |||..|+|+.|.|.
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~  120 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVF  120 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEE
Confidence            45689999999999999999999999999   88999988754 468999999999999999999 99999999999999


Q ss_pred             Eccc
Q 002093          648 QAVL  651 (967)
Q Consensus       648 ~a~~  651 (967)
                      ++.+
T Consensus       121 ~a~~  124 (136)
T 2hgl_A          121 KSHR  124 (136)
T ss_dssp             ECCH
T ss_pred             ECCh
Confidence            8854

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.26  E-value=3.9e-12  Score=115.62  Aligned_cols=74  Identities=26%  Similarity=0.374  Sum_probs=65.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..||.+.         . + ..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~---------~-~-~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   82 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDALEIR---------L-V-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRS   82 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEEC---------C-E-EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEE---------E-e-CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            4568999999999999999999999998421         1 2 4668889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus        83 l~v~~a   88 (96)
T 1fjc_A           83 VSLYYT   88 (96)
T ss_dssp             EEEEEC
T ss_pred             EEEEEc
Confidence            999854

>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

Probab=99.26  E-value=5.2e-12  Score=125.59  Aligned_cols=82  Identities=18%  Similarity=0.242  Sum_probs=69.4

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+||. ||+..|.|+
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~  109 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKII------MGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDR  109 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            35678999999999999999999999999643321      23444567889999999999999999999 999999999


Q ss_pred             eeEEeCCCc
Q 002093          539 ILKIKRPKE  547 (967)
Q Consensus       539 ~l~V~rp~~  547 (967)
                      .|+|.++..
T Consensus       110 ~l~V~~a~~  118 (156)
T 1h2v_Z          110 IIRTDWDAG  118 (156)
T ss_dssp             ECEEEEESC
T ss_pred             EEEEEECCC
Confidence            999986543

>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

Probab=99.26  E-value=1.6e-12  Score=120.27  Aligned_cols=76  Identities=29%  Similarity=0.325  Sum_probs=65.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..||. ..   +.   .+.+. +++++|||||+|.+.++|.+||++|+..|.|+.|
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~---v~---i~~d~-~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i   84 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNP-MR---VH---IEIGP-DGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV   84 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCC-SE---EE---EEESS-SSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eE---EE---EEECC-CCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEE
Confidence            44579999999999999999999999983 22   21   23443 7899999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus        85 ~V~~   88 (102)
T 1wez_A           85 ELFL   88 (102)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9974

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.26  E-value=8.4e-12  Score=116.97  Aligned_cols=76  Identities=11%  Similarity=0.119  Sum_probs=69.6

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+++++|+++|+.| .|..|.|+.+. +.++|||||+|.+.++|.+|| .|||..|+|+.|.|..+.+
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~   92 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATE   92 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCc
Confidence            4689999999999999999999999 88999998875 456999999999999999999 6999999999999988754

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=1.6e-11  Score=111.96  Aligned_cols=73  Identities=21%  Similarity=0.229  Sum_probs=64.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+||  .+|+++|+++|+.||            .|..+.++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G------------~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   77 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFG------------NIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESV   77 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTE
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCC------------CEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            346689999996  899999999999999            44566667899999999999999999998 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      +|.|.++.
T Consensus        78 ~l~v~~a~   85 (97)
T 1x5p_A           78 QLKVNIAR   85 (97)
T ss_dssp             EEEEECCS
T ss_pred             EEEEEECC
Confidence            99998643

>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}

Probab=99.25  E-value=2.3e-12  Score=120.12  Aligned_cols=80  Identities=16%  Similarity=0.178  Sum_probs=72.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCC---eeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~---V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ....+|||+|||..+|+++|+++|+.||.   |..|.|+.+. +.++|||||+|.+.++|.+||. |||..|+|+.|.|.
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~   87 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVY   87 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEE
Confidence            45789999999999999999999999988   8899998875 4569999999999999999999 99999999999999


Q ss_pred             EcccC
Q 002093          648 QAVLD  652 (967)
Q Consensus       648 ~a~~~  652 (967)
                      ++.+.
T Consensus        88 ~a~~~   92 (107)
T 2lmi_A           88 EINNE   92 (107)
T ss_dssp             ECCHH
T ss_pred             ECCHH
Confidence            98653

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.25  E-value=4.4e-12  Score=116.66  Aligned_cols=78  Identities=24%  Similarity=0.316  Sum_probs=66.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+.+|+++|+++|+.|+.      +   ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~------~---~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   82 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSVR------A---RIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGN   82 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCSE------E---EEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCeE------E---EEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            356789999999999999999999987642      2   133455678899999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|.|.++.
T Consensus        83 ~l~V~~a~   90 (102)
T 2fc8_A           83 KVTLDWAK   90 (102)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEec
Confidence            99998643

>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

Probab=99.25  E-value=1.5e-11  Score=113.51  Aligned_cols=72  Identities=24%  Similarity=0.260  Sum_probs=62.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..||.            |..+.+.  ++||||+|.+.++|.+||. |||..|.|++
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~------------i~~v~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g~~   74 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGK------------LERVKKL--KDYAFIHFDERDGAVKAMEEMNGKDLEGEN   74 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSC------------EEEEEEC--SSCEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------EEEEEEE--CCEEEEEeCCHHHHHHHHHHHCCCccCCCE
Confidence            45689999999999999999999999994            3333332  6799999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus        75 l~v~~a~   81 (103)
T 2dgu_A           75 IEIVFAK   81 (103)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9998644

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.25  E-value=4.1e-12  Score=123.62  Aligned_cols=80  Identities=25%  Similarity=0.336  Sum_probs=68.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|++
T Consensus        45 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~------i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~  118 (135)
T 2lea_A           45 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVY------IPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRE  118 (135)
T ss_dssp             GGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEE------CCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            4467999999999999999999999999644332      23455678899999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.+..
T Consensus       119 l~V~~a~  125 (135)
T 2lea_A          119 LRVQMAR  125 (135)
T ss_dssp             CEEEECC
T ss_pred             EEEEECC
Confidence            9998643

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.25  E-value=1.7e-12  Score=127.06  Aligned_cols=122  Identities=9%  Similarity=0.101  Sum_probs=71.2

Q ss_pred             CcEEEEEEcCHHHHHHHHH-ccCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHH
Q 002093          511 KGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSK  589 (967)
Q Consensus       511 kG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~tee  589 (967)
                      .|+||.+|..++-+..++. +..+ +.|...--.    +     +..         ..........+|||+|||..+|++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~-~gg~~~g~~----~-----g~~---------~~~~~~~~~~~lfV~nLp~~~te~   61 (139)
T 2hgn_A            1 MGSSHHHHHHSSGLVPRGSHMASM-TGGQQMGRG----S-----GDS---------EFTVQSTTGHCVHMRGLPYKATEN   61 (139)
T ss_dssp             ---------------------------------------------------------------CCCCEECCSCCTTCCHH
T ss_pred             CCcccccccCccccchhcccchhc-cCCCCCCCC----C-----CCc---------ccCCCCCCCCEEEEeCCCCCCCHH
Confidence            3688899998887776665 3322 222221000    0     000         001123346799999999999999


Q ss_pred             HHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          590 MVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       590 dL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      +|+++|++|| |..|.|+.+. +.++|||||+|.+.++|.+|| .+|+..|+|+.|.|..+.+..
T Consensus        62 dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~~  124 (139)
T 2hgn_A           62 DIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTG  124 (139)
T ss_dssp             HHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCSC
T ss_pred             HHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCCC
Confidence            9999999999 6699998875 356999999999999999999 799999999999998886543

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.25  E-value=2.1e-11  Score=111.18  Aligned_cols=77  Identities=19%  Similarity=0.335  Sum_probs=69.9

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+||  .+++++|+++|++||.|..|.|.    .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~   86 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   86 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSS
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCC
Confidence            35689999996  89999999999999999999884    3689999999999999999999999999999999999976


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        87 ~~~   89 (97)
T 1x5p_A           87 QPM   89 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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

Probab=99.25  E-value=2.3e-12  Score=123.28  Aligned_cols=79  Identities=9%  Similarity=0.180  Sum_probs=69.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||..+++++|+++|+.||.|..+.++.+  .+.++|||||+|.+.++|.+||. |||..|+|+.|.|.++
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            35689999999999999999999999999987444444  34468999999999999999999 9999999999999998


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      .+
T Consensus       102 ~~  103 (124)
T 1wel_A          102 TK  103 (124)
T ss_dssp             CH
T ss_pred             CH
Confidence            55

>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

Probab=99.25  E-value=1.3e-11  Score=116.31  Aligned_cols=76  Identities=18%  Similarity=0.280  Sum_probs=68.7

Q ss_pred             CCCceEEE--cCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc-----CCeEE
Q 002093          572 DSPHKIFI--GGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-----GGQVL  644 (967)
Q Consensus       572 ~~~~~L~V--~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~-----~Gr~I  644 (967)
                      .+..+|||  +||+..+++++|+++|++||.|..|.|+.    ++|||||+|.+.++|.+|+..|||..|     .|++|
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~----~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l   98 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL   98 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEEC
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEE
Confidence            34678999  77999999999999999999999998764    489999999999999999999999988     78999


Q ss_pred             EEEEccc
Q 002093          645 TAVQAVL  651 (967)
Q Consensus       645 ~V~~a~~  651 (967)
                      .|.++..
T Consensus        99 ~v~~a~~  105 (114)
T 2cq2_A           99 YLNFVEK  105 (114)
T ss_dssp             EEEEESC
T ss_pred             EEEeccc
Confidence            9999853

>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

Probab=99.25  E-value=1.1e-11  Score=111.00  Aligned_cols=75  Identities=15%  Similarity=0.231  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ...+|||+|||..+++++|+++|++| .|..+.+.    .++|||||+|.+.++|.+|+..|||..|+|+.|.|.++...
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   78 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCC
Confidence            45789999999999999999999999 99999885    36999999999999999999999999999999999998543

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.25  E-value=1.8e-11  Score=117.85  Aligned_cols=76  Identities=16%  Similarity=0.242  Sum_probs=69.7

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCE-EEEeecCcchHHHHHHHhCCCccCC--eEEEEEEccc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVL  651 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~-aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~  651 (967)
                      -.|||+||+..+|+++|+++|++||.|..|.++..   .+|| |||+|.+.++|..|++.|||..|.|  +.|+|.++.+
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~---~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~  105 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  105 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE---TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSC
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC---CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCC
Confidence            46889999999999999999999999999988765   4788 9999999999999999999999988  9999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       106 ~~  107 (130)
T 3zzy_A          106 TS  107 (130)
T ss_dssp             SS
T ss_pred             Cc
Confidence            54

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.24  E-value=3.5e-12  Score=119.53  Aligned_cols=75  Identities=21%  Similarity=0.341  Sum_probs=63.2

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      ..+|||+|||+.+|+++|+++|+.| .+   ..|.   .+.+. .++++|||||+|.+.++|.+||.+|+..|.|+.|.|
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v---~~v~---i~~d~-~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V   87 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RV---DAVH---LLKDH-VGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEV   87 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CC---CEEE---ECCCT-TCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-Ce---eEEE---EEECC-CCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEE
Confidence            4689999999999999999999988 43   2231   22333 488999999999999999999999999999999999


Q ss_pred             eCC
Q 002093          543 KRP  545 (967)
Q Consensus       543 ~rp  545 (967)
                      ...
T Consensus        88 ~~a   90 (109)
T 2dnn_A           88 SPA   90 (109)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            743

>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}

Probab=99.24  E-value=5.6e-12  Score=123.51  Aligned_cols=81  Identities=16%  Similarity=0.218  Sum_probs=71.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEE--------EEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAY--------HFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  643 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v--------~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~  643 (967)
                      .+.++|||+|||..+|+++|+++|++||.|..+        .+. ..+.++|||||+|.+.++|.+|+..|||..|.|+.
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~-~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~  121 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLM-KEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKP  121 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEE-EETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEec-cCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            356899999999999999999999999998763        332 24567999999999999999999999999999999


Q ss_pred             EEEEEcccCC
Q 002093          644 LTAVQAVLDG  653 (967)
Q Consensus       644 I~V~~a~~~~  653 (967)
                      |.|.++.+..
T Consensus       122 l~V~~a~~~~  131 (143)
T 3egn_A          122 MVVQFARSAR  131 (143)
T ss_dssp             CEEEECCCSC
T ss_pred             EEEEECCCCC
Confidence            9999996643

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.24  E-value=1.7e-11  Score=110.47  Aligned_cols=70  Identities=19%  Similarity=0.208  Sum_probs=59.0

Q ss_pred             CCCE-EEEeCCCCcchHHH----HHHHHHHh-hhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce
Q 002093          462 PMRR-LCVENLPLSASEKA----LMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       462 ~~r~-LyVgNLp~~~Teed----L~~~F~~f-G~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      +..| |||+|||+.+++++    |.++|++| |.            |+++ ++   |||||+|.+.++|..|+. |||..
T Consensus         7 p~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~------------Vl~V-tg---G~AfV~F~~~esA~~A~~~l~G~~   70 (96)
T 2diu_A            7 GCHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGK------------VLSI-TG---CSAILRFINQDSAERAQKRMENED   70 (96)
T ss_dssp             CSSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCC------------EEEC-CT---TCEEEEESSHHHHHHHHHHHTTCC
T ss_pred             CcceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCe------------eEEE-ec---CEEEEEECCHHHHHHHHHHhcCCc
Confidence            4456 99999999999998    55899999 44            3444 23   999999999999999999 99999


Q ss_pred             eecceeEEeCCCc
Q 002093          535 FSGSILKIKRPKE  547 (967)
Q Consensus       535 l~Gr~l~V~rp~~  547 (967)
                      |.|++|+|..++.
T Consensus        71 l~gr~i~v~~A~~   83 (96)
T 2diu_A           71 VFGNRIIVSFTPK   83 (96)
T ss_dssp             SSSSCCEEESSCC
T ss_pred             cCCceEEEEecCC
Confidence            9999999996543

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.24  E-value=1.8e-11  Score=113.84  Aligned_cols=81  Identities=20%  Similarity=0.172  Sum_probs=70.8

Q ss_pred             cCCCceEEEcCCCc-----ccCHHHHHHHHHhcCCeeEEEEeecCC---CCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          571 KDSPHKIFIGGISR-----TLSSKMVMEIVCAFGPLKAYHFEVNED---HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       571 ~~~~~~L~V~nLp~-----~~teedL~e~Fsk~G~V~~v~l~~d~~---~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      +.+..+|+|.||..     .-++++|+++|++||.|.+|.|+.++.   .++|||||+|.+.++|.+|+..|||++|+|+
T Consensus         5 ~~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr   84 (105)
T 2pe8_A            5 KCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGR   84 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            34578999999962     236899999999999999999998753   4699999999999999999999999999999


Q ss_pred             EEEEEEccc
Q 002093          643 VLTAVQAVL  651 (967)
Q Consensus       643 ~I~V~~a~~  651 (967)
                      .|.|.++.+
T Consensus        85 ~i~v~~a~~   93 (105)
T 2pe8_A           85 VVKACFYNL   93 (105)
T ss_dssp             ECEEEECCH
T ss_pred             EEEEEEcCH
Confidence            999999865

>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

Probab=99.24  E-value=6.9e-12  Score=126.10  Aligned_cols=79  Identities=20%  Similarity=0.176  Sum_probs=66.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      .+.++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|++
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~------i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~  143 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIH------LNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT  143 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEE------EEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            3457999999999999999999999999643321      22444578889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.+.
T Consensus       144 l~V~~a  149 (165)
T 1rk8_A          144 IQVDWC  149 (165)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            999853

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

Probab=99.23  E-value=1.3e-11  Score=125.79  Aligned_cols=82  Identities=15%  Similarity=0.236  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~  165 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  165 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            346899999999999999999999999999999998875 4468999999999999999999999999999999999996


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus       166 ~~~  168 (177)
T 2f3j_A          166 SQI  168 (177)
T ss_dssp             SGG
T ss_pred             CCC
Confidence            543

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=5.9e-12  Score=120.56  Aligned_cols=80  Identities=20%  Similarity=0.215  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcC-cccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g-~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ....+|||+|||+++|+++|+++|+.||.+.+ +..|.   .+.+ .+++++|||||+|.+.++|.+||.+|+..|.|+.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~---i~~d-~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~   96 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGIL---FVTY-PDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRY   96 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEE---EEEC-TTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEE---EEEC-CCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeE
Confidence            45679999999999999999999999996431 22231   2333 5789999999999999999999999999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|..
T Consensus        97 i~V~~  101 (123)
T 2dha_A           97 IELFR  101 (123)
T ss_dssp             ECCEE
T ss_pred             EEEEE
Confidence            98874

>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

Probab=99.23  E-value=6.3e-12  Score=118.77  Aligned_cols=75  Identities=12%  Similarity=0.105  Sum_probs=66.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeE-----EEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-----LTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~-----I~V~  647 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+     |||||+|.+.++|.+||+.|||..|+|+.     |.|.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~   89 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   89 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-----CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEec
Confidence            4589999999999999999999999999999999765     99999999999999999999999999998     6776


Q ss_pred             EcccC
Q 002093          648 QAVLD  652 (967)
Q Consensus       648 ~a~~~  652 (967)
                      .+.+.
T Consensus        90 ~~~~~   94 (115)
T 3beg_B           90 VDGPR   94 (115)
T ss_dssp             ECC--
T ss_pred             cCCCC
Confidence            66553

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

Probab=99.23  E-value=9.8e-12  Score=113.31  Aligned_cols=72  Identities=21%  Similarity=0.285  Sum_probs=61.8

Q ss_pred             CCCCCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          460 NRPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       460 ~~~~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ..+.++|||+|||+ .+|+++|+++|+.||.            |..+.+  ++|||||+|.+.++|..|+. |||..|.|
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~------------v~~v~i--~~g~afV~f~~~~~A~~A~~~l~g~~~~g   72 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGH------------IMQINI--KNAFGFIQFDNPQSVRDAIECESQEMNFG   72 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCC------------CCEEEE--ETTEEEEEESCHHHHHHHHHHHTCSSCBT
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCC------------EEEEEE--eCCEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            35678999999998 9999999999999994            233333  38999999999999999999 99999999


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      ++|.|.+.
T Consensus        73 ~~l~V~~a   80 (96)
T 2kvi_A           73 KKLILEVS   80 (96)
T ss_dssp             TTBCEEEE
T ss_pred             cEEEEEEc
Confidence            99999853

>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}

Probab=99.23  E-value=1.6e-11  Score=110.67  Aligned_cols=76  Identities=17%  Similarity=0.352  Sum_probs=63.5

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCc--cCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLK--VGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~--~~Gr~I~V~~  648 (967)
                      ..+.++|||+|||..+|+++|+++|++||.|..|.|+.+   ++|||||+|.+.++|.+    |+|..  +.|+.|.|.+
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~---srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~   80 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP---FRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISN   80 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS---CCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC---CCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEE
Confidence            345789999999999999999999999999999999886   89999999999999873    56654  5699999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      +.+..
T Consensus        81 a~~k~   85 (89)
T 3d2w_A           81 AEPKH   85 (89)
T ss_dssp             CC---
T ss_pred             cCCCC
Confidence            87643

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.23  E-value=9.8e-12  Score=116.56  Aligned_cols=80  Identities=19%  Similarity=0.220  Sum_probs=65.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHH---HHHHHhhhhcCcccccCCcCeeeeee---cCCCcEEEEEEcCHHHHHHHHH-ccCc
Q 002093          461 RPMRRLCVENLPLSASEKALM---EFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGC  533 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~---~~F~~fG~~~g~~~v~~~~~v~~~~~---~~skG~aFVeF~~~e~A~~Al~-lng~  533 (967)
                      ...++|||+|||+.+|+++|+   ++|..||.+..+..      +.+..+   +.++|||||+|.+.++|..||. |||.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i------~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~   86 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVI------NNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNV   86 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEE------ECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEE------ecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCC
Confidence            446799999999999999999   99999996444321      122222   3556999999999999999999 9999


Q ss_pred             eeecceeEEeCCC
Q 002093          534 SFSGSILKIKRPK  546 (967)
Q Consensus       534 ~l~Gr~l~V~rp~  546 (967)
                      .|.|++|+|.++.
T Consensus        87 ~~~gr~l~V~~a~   99 (111)
T 2cpi_A           87 VVDGRTLKASLGT   99 (111)
T ss_dssp             EETTEEEEEESCC
T ss_pred             EECCEEEEEEecc
Confidence            9999999999644

>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

Probab=99.22  E-value=1.9e-11  Score=115.08  Aligned_cols=72  Identities=19%  Similarity=0.220  Sum_probs=61.6

Q ss_pred             CCCCEEEE--eCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee--
Q 002093          461 RPMRRLCV--ENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF--  535 (967)
Q Consensus       461 ~~~r~LyV--gNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l--  535 (967)
                      .+.++|||  |||+.++|+++|+++|++||.            |.++.+..++|||||+|.+.++|..|++ |||..|  
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~------------v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~   90 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGL------------VDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVD   90 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSC------------EEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEEC
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCC------------eEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEcc
Confidence            45679999  779999999999999999994            3344444568999999999999999999 999988  


Q ss_pred             ---ecceeEEeC
Q 002093          536 ---SGSILKIKR  544 (967)
Q Consensus       536 ---~Gr~l~V~r  544 (967)
                         .|++|.|..
T Consensus        91 ~lg~g~~l~v~~  102 (114)
T 2cq2_A           91 DLGQKITLYLNF  102 (114)
T ss_dssp             TTSCEEECEEEE
T ss_pred             ccCCCcEEEEEe
Confidence               688888874

>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

Probab=99.22  E-value=1.7e-11  Score=114.55  Aligned_cols=71  Identities=24%  Similarity=0.407  Sum_probs=62.4

Q ss_pred             CCCEEEEeCCCCc-chHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          462 PMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       462 ~~r~LyVgNLp~~-~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ..++|||+|||+. +|+++|+++|..||.            |..+.+  ++|||||+|.+.++|..|+. |||..|.|+.
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~------------v~~v~i--~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   91 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGR------------VAGCSV--HKGYAFVQYSNERHARAAVLGENGRVLAGQT   91 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSC------------CSEEEE--ETTEEEEECSSSHHHHHHHHHHTTCEETTEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCC------------eEEEEE--eCCEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            4579999999999 999999999999994            233333  68999999999999999998 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+..
T Consensus        92 l~V~~a~   98 (110)
T 1wf1_A           92 LDINMAG   98 (110)
T ss_dssp             CCEEESC
T ss_pred             EEEEECC
Confidence            9998643

>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

Probab=99.22  E-value=1.7e-11  Score=109.14  Aligned_cols=71  Identities=24%  Similarity=0.462  Sum_probs=66.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhc----C-------CeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG  641 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~----G-------~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G  641 (967)
                      ...+|||+|||..+++++|+++|++|    |       .|..+.+..+    +|||||+|.+.++|.+|+ .|||..|.|
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~----kg~afV~f~~~~~a~~A~-~l~g~~~~g   79 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD----KNFAFLEFRSVDETTQAM-AFDGIIFQG   79 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS----SSEEEEEESSHHHHHHHG-GGTTCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC----CcEEEEEcCCHHHHHHHH-hcCCCEECC
Confidence            35799999999999999999999999    8       8999988764    899999999999999999 999999999


Q ss_pred             eEEEEEE
Q 002093          642 QVLTAVQ  648 (967)
Q Consensus       642 r~I~V~~  648 (967)
                      +.|.|.+
T Consensus        80 ~~l~V~r   86 (87)
T 2hzc_A           80 QSLKIRR   86 (87)
T ss_dssp             EECEEEC
T ss_pred             eEEEEeC
Confidence            9999975

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.22  E-value=1.7e-11  Score=112.76  Aligned_cols=78  Identities=15%  Similarity=0.384  Sum_probs=71.6

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .++|||+|||..+++++|+++|+.||.|..|.|+.+. +.++|||||+|.+.++|.+|+.  +|..|+|+.|.|.++.+.
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a~~~   86 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIRK   86 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEECCcC
Confidence            5799999999999999999999999999999999885 3358999999999999999998  999999999999999764


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        87 ~   87 (102)
T 2xs2_A           87 Q   87 (102)
T ss_dssp             C
T ss_pred             c
Confidence            4

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.22  E-value=2.6e-11  Score=121.19  Aligned_cols=78  Identities=15%  Similarity=0.213  Sum_probs=70.3

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC--eEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~  651 (967)
                      ..+|||+||+..+|+++|+++|++||.|..|.|....  ++|||||+|.+.++|..|+..|||..|.|  +.|+|.++.+
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~--~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~  123 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  123 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS--SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSS
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC--CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecC
Confidence            3568999999999999999999999999999987542  57899999999999999999999999955  9999999977


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       124 ~~  125 (164)
T 1sjr_A          124 TS  125 (164)
T ss_dssp             SS
T ss_pred             Cc
Confidence            54

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=2.3e-11  Score=111.84  Aligned_cols=81  Identities=12%  Similarity=0.187  Sum_probs=70.4

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....++|||+|||..+++++|+++|+.|+   .|.++.+.  +.++|||||+|.+.++|.+||..|||..|.|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDW   88 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            34568999999999999999999999874   56666664  34589999999999999999999999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      +.+...
T Consensus        89 a~~~~~   94 (102)
T 2fc8_A           89 AKPKGE   94 (102)
T ss_dssp             CCCCCS
T ss_pred             ecCCCC
Confidence            977543

>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*

Probab=99.21  E-value=4.7e-12  Score=146.66  Aligned_cols=163  Identities=10%  Similarity=0.046  Sum_probs=102.4

Q ss_pred             HHHHHHhcCCeeEEEEe----ecCCCC---CCEE--EEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCC
Q 002093          591 VMEIVCAFGPLKAYHFE----VNEDHE---EPCA--FIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN  661 (967)
Q Consensus       591 L~e~Fsk~G~V~~v~l~----~d~~~s---kG~a--FVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~~~~~~~~  661 (967)
                      |..+|.++|+|..|..+    .+....   .|++  |+.|.....+..++..++.....++.............   ...
T Consensus         9 L~~lF~p~pPl~~~~P~~~~p~~~~~~~~~~gia~~~~~f~~~~~~~~~~~~e~~~~~~~~~~~~k~~~~~~~~---~~~   85 (437)
T 3pgw_S            9 LLALFAPRDPIPYLPPLEKLPHEKHHNQPYCGIAPYIREFEDPRDAPPPTRAETREERMERKRREKIERRQQEV---ETE   85 (437)
T ss_pred             HHHhcCCCCCCcCCCCcccccccccCCCCcccHHHHHHhhcCcccccccccccCHHHHHHHHHHHHHHHHHHHH---HHh
Confidence            67899999999876322    222122   3344  78887776665555444332221110000000000000   000


Q ss_pred             CCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecC-CCCCcceeEEEEeC
Q 002093          662 PPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGN  740 (967)
Q Consensus       662 ~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~-~~g~~~G~gFVeF~  740 (967)
                      ... ..+.........+.++|+|.||....     ++       ++|+++|++||.|+.|.|+.+ .+|..+|||||+|.
T Consensus        86 ~~~-~~p~~~~~~~~~~~~~lfV~nL~~~~-----te-------~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~  152 (437)
T 3pgw_S           86 LKM-WDPHNDPNAQGDAFKTLFVARVNYDT-----TE-------SKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE  152 (437)
T ss_pred             hhh-cCCcccccccCCCCCEEEEeCCCCCC-----CH-------HHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeec
Confidence            000 00001111223567899999996532     32       578999999999999999987 47888999999999


Q ss_pred             CHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          741 ENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       741 ~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      +.++|.+||..|||..|.|+.|.|.++..
T Consensus       153 ~~e~A~~Ai~~lng~~i~gr~i~V~~a~~  181 (437)
T 3pgw_S          153 HERDMHSAYKHADGKKIDGRRVLVDVERG  181 (437)
T ss_pred             cHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            99999999999999999999999988754

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

Probab=99.21  E-value=2.7e-11  Score=109.83  Aligned_cols=74  Identities=20%  Similarity=0.226  Sum_probs=61.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+        +.+..++.   ||||+|.+.++|..||.|||..|.|+.|
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--------~~~~~~g~---~afV~f~~~~~a~~ai~l~g~~~~g~~l   74 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--------VMDKDKGV---FAIVEMGDVGAREAVLSQSQHSLGGHRL   74 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--------EECSSSCC---EEEEEESSHHHHHHHHTCSCCEETTEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--------EEcCCCCc---EEEEEECCHHHHHHHHhcCCeEECCEEE
Confidence            456799999999999999999999999953321        22333333   9999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|...
T Consensus        75 ~V~~a   79 (94)
T 2e5g_A           75 RVRPR   79 (94)
T ss_dssp             CCBCS
T ss_pred             EEEEC
Confidence            99854

>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

Probab=99.21  E-value=6.5e-12  Score=133.28  Aligned_cols=79  Identities=13%  Similarity=0.029  Sum_probs=67.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhh--hhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG--~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..++|||+|||+.+|+++|+++|..||  .+..+      .++.+..++.++|||||+|.+.++|.+||. |||..|.|+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v------~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr  140 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEI------KFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQ  140 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEE------EEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTB
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCE
Confidence            567999999999999999999999999  53332      134566789999999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|.++.
T Consensus       141 ~l~V~~a~  148 (229)
T 3q2s_C          141 NPVVTPVN  148 (229)
T ss_dssp             CCEEEECC
T ss_pred             EeEEEECC
Confidence            99998543

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=9.3e-12  Score=119.20  Aligned_cols=79  Identities=11%  Similarity=0.167  Sum_probs=70.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCe----eEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPL----KAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  646 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V----~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V  646 (967)
                      ....+|||+|||+.+|+++|+++|++||.|    ..|.|+.+. +.++|||||+|.+.++|.+||.. ||..|+|+.|.|
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V   99 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIEL   99 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEE
Confidence            346899999999999999999999999986    578888874 34689999999999999999985 999999999999


Q ss_pred             EEccc
Q 002093          647 VQAVL  651 (967)
Q Consensus       647 ~~a~~  651 (967)
                      ..+.+
T Consensus       100 ~~a~~  104 (123)
T 2dha_A          100 FRSTA  104 (123)
T ss_dssp             EEECH
T ss_pred             EECCH
Confidence            88754

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.20  E-value=4.3e-11  Score=114.60  Aligned_cols=75  Identities=17%  Similarity=0.148  Sum_probs=67.5

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCE-EEEeecCcchHHHHHHHhCCCccCC--eEEEEEEccc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVL  651 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~-aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~~  651 (967)
                      -.|||+||+..+++++|+++|++||.|..|.|+..    .|| |||+|.+.++|..|+..|||..|.|  +.|.|.+|.+
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~  101 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARP  101 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSC
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecC
Confidence            34789999999999999999999999999998653    396 9999999999999999999999977  6999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus       102 ~~  103 (124)
T 2e5i_A          102 TR  103 (124)
T ss_dssp             SC
T ss_pred             Cc
Confidence            54

>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

Probab=99.20  E-value=1.4e-11  Score=115.74  Aligned_cols=78  Identities=22%  Similarity=0.250  Sum_probs=63.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee---
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF---  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l---  535 (967)
                      ....++|||+|||+.+|+++|+++|..||.+..+.      .+.+. ++.++|||||+|.+.++|..||. |||..|   
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~------i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~   94 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTR------ILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTP   94 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEE------EEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEEcCC
Confidence            34568999999999999999999999999644321      22333 78889999999999999999999 999999   


Q ss_pred             -----ecceeEEeC
Q 002093          536 -----SGSILKIKR  544 (967)
Q Consensus       536 -----~Gr~l~V~r  544 (967)
                           .+++|.|.+
T Consensus        95 ~~~~~~~~~l~v~~  108 (114)
T 1x5o_A           95 PGVSAPTEPLLCKF  108 (114)
T ss_dssp             TTSCCCSSCBEEEE
T ss_pred             ccccCCCCceeEEc
Confidence                 466677763

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=3.5e-11  Score=108.41  Aligned_cols=72  Identities=10%  Similarity=0.129  Sum_probs=64.3

Q ss_pred             ceEEEcCCCcccCHHH----HHHHHHhc-CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKM----VMEIVCAF-GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teed----L~e~Fsk~-G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +.|||+|||..+++++    |+++|++| |.|.+|.        .|+|||.|.+.++|.+|++.|+|..|.|++|+|.+|
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt--------gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A   81 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT--------GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFT   81 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC--------TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESS
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe--------cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEec
Confidence            3499999999999987    55899999 5998881        299999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      ..+..
T Consensus        82 ~~~sd   86 (96)
T 2diu_A           82 PKNRE   86 (96)
T ss_dssp             CCSCC
T ss_pred             CCCcc
Confidence            76554

>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

Probab=99.20  E-value=8.2e-12  Score=120.00  Aligned_cols=78  Identities=15%  Similarity=0.224  Sum_probs=63.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|+.|+ +.. ..|.   .+.+.. ++++|||||+|.+.++|.+||.+++..|.|+.|
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~~-i~~-~~v~---i~~d~~-GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I  113 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGLE-IVP-NGIT---LPVDPE-GKITGEAFVQFASQELAEKALGKHKERIGHRYI  113 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTSC-EEE-EEEE---CCCCSS-SSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCC-cee-eEEE---EEECCC-CCCceEEEEEECCHHHHHHHHHHCCCEECCEEE
Confidence            4467899999999999999999999985 220 0221   234444 899999999999999999999988899999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus       114 ~V~~  117 (126)
T 2hgm_A          114 EVFK  117 (126)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            9974

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

Probab=98.82  E-value=1.6e-12  Score=122.70  Aligned_cols=87  Identities=20%  Similarity=0.197  Sum_probs=69.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcc--cccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~--~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ..+.++|||+|||..+|+++|+++|+.||.+....  ..+....+.+..++.++|||||+|.+.++|..|+. |||..|.
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (116)
T 2lcw_A            4 NSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   83 (116)
Confidence            35678999999999999999999999999754310  00001133455678899999999999999999999 9999999


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|.|.++.
T Consensus        84 g~~l~V~~a~   93 (116)
T 2lcw_A           84 GNPIKVSFAT   93 (116)
Confidence            9999998643

>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

Probab=99.19  E-value=1.4e-11  Score=110.42  Aligned_cols=71  Identities=25%  Similarity=0.367  Sum_probs=61.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|.+| .+..   +         .+..++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~---~---------~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   69 (88)
T 1wg1_A            3 SGSSGILVKNLPQDSNCQEVHDLLKDY-DLKY---C---------YVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKD   69 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSS-CCCC---E---------EEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CeEE---E---------EEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcE
Confidence            456799999999999999999999887 4222   2         112789999999999999999999 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|.+
T Consensus        70 l~V~~   74 (88)
T 1wg1_A           70 LIVQL   74 (88)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            99985

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

Probab=98.82  E-value=1.8e-12  Score=122.35  Aligned_cols=82  Identities=16%  Similarity=0.250  Sum_probs=74.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE--------EEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--------v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      ..++|||+|||..+++++|+++|++||.|..        |.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   85 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGN   85 (116)
Confidence            4678999999999999999999999999998        8888774  35689999999999999999999999999999


Q ss_pred             EEEEEEcccCCC
Q 002093          643 VLTAVQAVLDGS  654 (967)
Q Consensus       643 ~I~V~~a~~~~~  654 (967)
                      .|.|.++.+...
T Consensus        86 ~l~V~~a~~~~~   97 (116)
T 2lcw_A           86 PIKVSFATRRAD   97 (116)
Confidence            999999976544

>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

Probab=99.17  E-value=2.6e-11  Score=116.56  Aligned_cols=78  Identities=10%  Similarity=0.224  Sum_probs=69.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCee--EEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLK--AYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~--~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      ....+|||+|||+.+|+++|+++|+.| .|.  .|.|+.+. +.++|||||+|.+.++|.+||. +++..|+|+.|.|.+
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~  117 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFK  117 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEE
Confidence            446889999999999999999999999 566  89998875 4569999999999999999998 588999999999988


Q ss_pred             ccc
Q 002093          649 AVL  651 (967)
Q Consensus       649 a~~  651 (967)
                      +.+
T Consensus       118 a~~  120 (126)
T 2hgm_A          118 SSQ  120 (126)
T ss_dssp             ECH
T ss_pred             CCH
Confidence            754

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.17  E-value=5.2e-11  Score=113.23  Aligned_cols=76  Identities=9%  Similarity=0.106  Sum_probs=67.3

Q ss_pred             CceEEEcCC----CcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecC----cch----HHHHHH--HhCCC
Q 002093          574 PHKIFIGGI----SRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVD----QLV----TPKAIA--GLNGL  637 (967)
Q Consensus       574 ~~~L~V~nL----p~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~----~e~----A~~Al~--~LnG~  637 (967)
                      +..|||+||    |+.+++.+|+++|+.||.|.+|.++.|+.+  ++|||||+|.+    ++.    |.+|+.  .|+|.
T Consensus         2 p~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~   81 (136)
T 2j8a_A            2 SCEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGC   81 (136)
T ss_dssp             CCEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCE
T ss_pred             CcEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCC
Confidence            368999999    999999999999999999999999999765  59999999997    544    788888  78999


Q ss_pred             ccCCeEEEEEEc
Q 002093          638 KVGGQVLTAVQA  649 (967)
Q Consensus       638 ~~~Gr~I~V~~a  649 (967)
                      .|+|+.|.|..-
T Consensus        82 ~I~Gr~irV~ln   93 (136)
T 2j8a_A           82 FIMGFKFEVILN   93 (136)
T ss_dssp             EETTEEEEEEEC
T ss_pred             eecCcEEEEEEC
Confidence            999999999765

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.17  E-value=5.4e-12  Score=116.13  Aligned_cols=75  Identities=19%  Similarity=0.244  Sum_probs=64.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+.+|+++|+++|+.||.+..+.      .+.+. ++.++|||||+|.+.++|..|+. ++..|.|+.|.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~------i~~~~-~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~   79 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVK------IITDR-TGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLK   79 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------EEECT-TSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEE------EEECC-CCCccceEEEEECCHHHHHHHHh-CCCeECCEEEE
Confidence            457999999999999999999999999644331      22333 78889999999999999999999 99999999999


Q ss_pred             EeC
Q 002093          542 IKR  544 (967)
Q Consensus       542 V~r  544 (967)
                      |.+
T Consensus        80 v~~   82 (102)
T 2xs2_A           80 LGP   82 (102)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            885

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

Probab=99.17  E-value=3.8e-11  Score=122.30  Aligned_cols=78  Identities=23%  Similarity=0.241  Sum_probs=66.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+.      .+.+. ++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~------i~~d~-~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~  158 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAA------VDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGRP  158 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEE------ECCCT-TSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEECC-CCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEE
Confidence            3457999999999999999999999999644331      11233 68899999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.++
T Consensus       159 l~V~~a  164 (177)
T 2f3j_A          159 MDIQLV  164 (177)
T ss_dssp             CEEEEE
T ss_pred             EEEEEe
Confidence            999854

>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

Probab=99.16  E-value=2.9e-11  Score=114.16  Aligned_cols=69  Identities=26%  Similarity=0.290  Sum_probs=57.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.            |..+.+... |||||+|.+.++|..||. |||..|.|+.
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G~------------v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   80 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAGD------------VCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSHE   80 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGSC------------EEEEEECTT-SEEEEEESSHHHHHHHHHHHTTCBCCCTT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCC------------eEEEEEecC-CEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            34579999999999999999999999994            334444333 999999999999999999 9999999998


Q ss_pred             eEE
Q 002093          540 LKI  542 (967)
Q Consensus       540 l~V  542 (967)
                      |+|
T Consensus        81 ~~~   83 (115)
T 3beg_B           81 GET   83 (115)
T ss_dssp             SCC
T ss_pred             eee
Confidence            443

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

Probab=99.16  E-value=7.8e-11  Score=106.97  Aligned_cols=77  Identities=18%  Similarity=0.246  Sum_probs=62.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+.         .+......|.|||+|.+.++|..|+. |||..|.|++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~---------~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~   83 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCE---------QVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFT   83 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEE---------EECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEE---------EeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            3467999999999999999999999999522210         11223345569999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.++.
T Consensus        84 l~V~~a~   90 (96)
T 2e44_A           84 LKVAYIP   90 (96)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcC
Confidence            9998543

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.15  E-value=6.9e-12  Score=122.68  Aligned_cols=76  Identities=28%  Similarity=0.338  Sum_probs=64.6

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+++|+++|+++|++|| +..   |.   ++.+.. ++++|||||+|.+.++|.+||.+|+..|.|+.|
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~---v~---i~~d~~-g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i  115 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLN-PVR---VH---IEIGPD-GRVTGEADVEFATHEEAVAAMSKDRANMQHRYI  115 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCC-CSE---EE---CCCSSS-SCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeE---EE---EEECCC-CCCceEEEEEeCCHHHHHHHHhhCCCEECCEEE
Confidence            4567999999999999999999999998 333   21   234443 899999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus       116 ~V~~  119 (139)
T 2hgn_A          116 ELFL  119 (139)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            9974

>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

Probab=99.13  E-value=3.7e-11  Score=107.49  Aligned_cols=77  Identities=13%  Similarity=0.261  Sum_probs=65.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..++|||+|||..+++++|+++|++||.|..|.|+.+   ++|||||+|.+.++|.+|+.  .+..+.|+.|.|.++.+.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~~~~--~~~~~~g~~l~v~~a~~~   78 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPK   78 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC---CCCEEEEEECCHHHHHHHhc--CCceeCCEEEEEEecCCC
Confidence            4689999999999999999999999999999999876   79999999999999975422  134559999999998765


Q ss_pred             CC
Q 002093          653 GS  654 (967)
Q Consensus       653 ~~  654 (967)
                      ..
T Consensus        79 ~~   80 (88)
T 1wf0_A           79 HN   80 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

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

Probab=99.12  E-value=4.3e-11  Score=112.71  Aligned_cols=74  Identities=20%  Similarity=0.174  Sum_probs=58.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee---cCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~---~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+. +.      .+.+..+   +.++|||||+|.+.++|..||. |++  +.
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~------~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~--~~   76 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VD------WPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE--ED   76 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EE------CTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE--ET
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EE------EeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh--cC
Confidence            4578999999999999999999999999644 21      2233344   7899999999999999999999 732  55


Q ss_pred             cceeEEe
Q 002093          537 GSILKIK  543 (967)
Q Consensus       537 Gr~l~V~  543 (967)
                      |+.|.+.
T Consensus        77 G~~~~~~   83 (114)
T 2dnl_A           77 GKLYLCV   83 (114)
T ss_dssp             TEEEEEE
T ss_pred             CcEEEec
Confidence            6655554

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

Probab=99.11  E-value=1.5e-10  Score=109.06  Aligned_cols=74  Identities=18%  Similarity=0.346  Sum_probs=63.5

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-----CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-----~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ..++|||+|||..+++++|+++|++||.|. +.++.+.     +.++|||||+|.+.++|.+|++.|+  .++|+.|.+.
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~~~~   83 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--EEDGKLYLCV   83 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--EETTEEEEEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--hcCCcEEEec
Confidence            468999999999999999999999999999 7777664     3569999999999999999999984  3677777665


Q ss_pred             Ec
Q 002093          648 QA  649 (967)
Q Consensus       648 ~a  649 (967)
                      .+
T Consensus        84 ~~   85 (114)
T 2dnl_A           84 SS   85 (114)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.11  E-value=1.1e-10  Score=116.62  Aligned_cols=74  Identities=22%  Similarity=0.237  Sum_probs=61.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--ce
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--SI  539 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--r~  539 (967)
                      -.+|||+||++.+|+++|+++|+.||.+..+          .+....++|||||+|.+.++|..|+. |||..|.|  +.
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V----------~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~  115 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKI----------ITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCT  115 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEE----------EEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSC
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEE----------EEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcE
Confidence            3479999999999999999999999953332          12234468899999999999999999 99999966  99


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+.+
T Consensus       116 L~V~~Ak  122 (164)
T 1sjr_A          116 LRIDFSK  122 (164)
T ss_dssp             EEEEECS
T ss_pred             EEEEEec
Confidence            9998543

>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

Probab=99.10  E-value=1.3e-10  Score=107.98  Aligned_cols=79  Identities=18%  Similarity=0.227  Sum_probs=67.8

Q ss_pred             CCceEEEcCC--Cccc--------CHHHHHHHHHhcCCeeEEEEeecCC----CCCCEEEEeecCcchHHHHHHHhCCCc
Q 002093          573 SPHKIFIGGI--SRTL--------SSKMVMEIVCAFGPLKAYHFEVNED----HEEPCAFIEYVDQLVTPKAIAGLNGLK  638 (967)
Q Consensus       573 ~~~~L~V~nL--p~~~--------teedL~e~Fsk~G~V~~v~l~~d~~----~skG~aFVeF~~~e~A~~Al~~LnG~~  638 (967)
                      +...|+|.|+  |..+        .+++|+++|++||.|.+|.|+++..    .++|+|||+|.+.++|.+|+..|||++
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~   83 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   83 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            3567888887  3333        3479999999999999999988753    368999999999999999999999999


Q ss_pred             cCCeEEEEEEccc
Q 002093          639 VGGQVLTAVQAVL  651 (967)
Q Consensus       639 ~~Gr~I~V~~a~~  651 (967)
                      |+|+.|.|.++.+
T Consensus        84 f~GR~i~v~~~~~   96 (105)
T 3v4m_A           84 FANRVVVTKYCDP   96 (105)
T ss_dssp             ETTEECEEEEECH
T ss_pred             eCCCEEEEEEeCH
Confidence            9999999999854

>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

Probab=99.10  E-value=3.4e-10  Score=116.84  Aligned_cols=120  Identities=13%  Similarity=0.023  Sum_probs=89.4

Q ss_pred             CHHHHHHHHH-c--cCceeecceeEEeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHH
Q 002093          520 TAEDASAALC-C--DGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVC  596 (967)
Q Consensus       520 ~~e~A~~Al~-l--ng~~l~Gr~l~V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fs  596 (967)
                      +.+.+..|+. .  ..+.+.+....|.+......+  .....         .......++|||+|||..+++++|+++|+
T Consensus        63 d~~~I~~Al~~S~~~~lev~ed~~~vrR~~~~p~p--~~~~~---------~~~~~~~~~l~V~nLp~~~t~~~L~~~F~  131 (193)
T 2voo_A           63 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLP--EVTDE---------YKNDVKNRSVYIKGFPTDATLDDIKEWLE  131 (193)
T ss_dssp             CHHHHHHHHHTCSSCCEEECTTSSEEEECTTSCCC--CCCHH---------HHHHHHHTEEEEECCCTTCCHHHHHHHHT
T ss_pred             CHHHHHHHHhhcccceEEEecccceEEecccCCCc--ccchh---------hhhccccCEEEecCCCCcCCHHHHHHHHh
Confidence            6677888888 6  566777777777753111000  00000         00011247899999999999999999999


Q ss_pred             hcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          597 AFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       597 k~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      +||.|..|+|+++. +.++|||||+|.+.++|.+|+..+ +..|+|+.|.|.++..
T Consensus       132 ~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          132 DKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFKDD  186 (193)
T ss_dssp             TSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEETTT
T ss_pred             cCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEhHH
Confidence            99999999998874 345899999999999999999855 5699999999998744

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.09  E-value=1.5e-10  Score=111.41  Aligned_cols=71  Identities=20%  Similarity=0.240  Sum_probs=59.5

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcE-EEEEEcCHHHHHHHHH-ccCceeec--ce
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ-AFVEFLTAEDASAALC-CDGCSFSG--SI  539 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~-aFVeF~~~e~A~~Al~-lng~~l~G--r~  539 (967)
                      .+|||+||++.+|+++|.++|+.||.+..+.       |.    ...+|| |||+|.+.++|..|+. |||..|.|  +.
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~-------i~----~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~   97 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKII-------TF----TKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCT   97 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEE-------EE----EETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEE
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEE-------EE----cCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcE
Confidence            3789999999999999999999999633321       11    234788 9999999999999999 99999998  88


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|..+
T Consensus        98 LrI~~a  103 (130)
T 3zzy_A           98 LRIDFS  103 (130)
T ss_dssp             EEEEEC
T ss_pred             EEEEec
Confidence            999854

>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

Probab=99.08  E-value=2.7e-10  Score=106.98  Aligned_cols=81  Identities=16%  Similarity=0.198  Sum_probs=68.9

Q ss_pred             cCCCceEEEcCCCccc-----------CHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc
Q 002093          571 KDSPHKIFIGGISRTL-----------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV  639 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~-----------teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~  639 (967)
                      +.+..+|+|.||....           ++++|+++|++||.|..|.| .+. .++|||||+|.+.++|.+|+..|||..|
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~-~~~G~afV~f~~~~~A~~Ai~~lng~~~   89 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDR-HPDGVASVSFRDPEEADYCIQTLDGRWF   89 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETT-CTTCEEEEECSCHHHHHHHHHHSTTCEE
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecC-CCCEEEEEEECCHHHHHHHHHHcCCCEE
Confidence            4457899999994332           25899999999999999965 443 3799999999999999999999999999


Q ss_pred             CCeEEEEEEcccCC
Q 002093          640 GGQVLTAVQAVLDG  653 (967)
Q Consensus       640 ~Gr~I~V~~a~~~~  653 (967)
                      +|+.|.|.++.+..
T Consensus        90 ~gr~l~v~~a~~~~  103 (112)
T 2dit_A           90 GGRQITAQAWDGTT  103 (112)
T ss_dssp             TTEECEEEECCSCC
T ss_pred             CCcEEEEEEeCCCC
Confidence            99999999997643

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.08  E-value=2e-10  Score=109.99  Aligned_cols=69  Identities=25%  Similarity=0.229  Sum_probs=57.0

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcE-EEEEEcCHHHHHHHHH-ccCceeec--cee
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ-AFVEFLTAEDASAALC-CDGCSFSG--SIL  540 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~-aFVeF~~~e~A~~Al~-lng~~l~G--r~l  540 (967)
                      .|||+|||+.+|+++|.++|++||.+..            +.+....|| |||+|.+.++|..|+. |||..|.|  ++|
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~------------v~i~~~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l   94 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQR------------IVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTL   94 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEE------------EEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEE
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEE------------EEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEE
Confidence            5789999999999999999999995333            211111486 9999999999999999 99999988  689


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|..+
T Consensus        95 ~V~~A   99 (124)
T 2e5i_A           95 KIEYA   99 (124)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            99853

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.08  E-value=1.3e-10  Score=123.46  Aligned_cols=78  Identities=17%  Similarity=0.295  Sum_probs=69.9

Q ss_pred             CCceEEEcCCCccc---------CHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc----
Q 002093          573 SPHKIFIGGISRTL---------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV----  639 (967)
Q Consensus       573 ~~~~L~V~nLp~~~---------teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~----  639 (967)
                      ...+|||+||+..+         ++++|+++|++||.|..|.|+.    ++|||||+|.+.++|..|+..|+|..|    
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~----~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~  208 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE----SKNCGFVKFKYQANAEFAKEAMSNQTLLLPS  208 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG----GGTEEEEEESSHHHHHHHHHHHTTCCCCCTT
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC----CCCEEEEEeCCHHHHHHHHHHhCCCEEeccc
Confidence            46899999999998         7999999999999999999986    489999999999999999999999999    


Q ss_pred             --------CCeEEEEEEcccCCC
Q 002093          640 --------GGQVLTAVQAVLDGS  654 (967)
Q Consensus       640 --------~Gr~I~V~~a~~~~~  654 (967)
                              .|+.|.|.+|...++
T Consensus       209 ~~e~~~~~~gr~L~V~wA~~~pn  231 (240)
T 3u1l_A          209 DKEWDDRREGTGLLVKWANEDPD  231 (240)
T ss_dssp             STTGGGGGGSCCCEEEECC----
T ss_pred             cccccccCCCCEEEEEEccCCCC
Confidence                    899999999975443

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.07  E-value=2e-10  Score=121.95  Aligned_cols=76  Identities=17%  Similarity=0.106  Sum_probs=66.4

Q ss_pred             CCCCCEEEEeCCCCcc---------hHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-
Q 002093          460 NRPMRRLCVENLPLSA---------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-  529 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~---------TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-  529 (967)
                      ....++|||||||..+         |+++|+++|++||.            |.++.+..++|||||+|.+.++|..|++ 
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~------------I~~v~v~~~kG~AFV~F~~~~~Ae~A~~a  198 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGD------------IDRIRYVESKNCGFVKFKYQANAEFAKEA  198 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSC------------EEEEEEEGGGTEEEEEESSHHHHHHHHHH
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCC------------EEEEEEECCCCEEEEEeCCHHHHHHHHHH
Confidence            4567899999999998         89999999999994            4455555689999999999999999999 


Q ss_pred             ccCcee------------ecceeEEeCCCc
Q 002093          530 CDGCSF------------SGSILKIKRPKE  547 (967)
Q Consensus       530 lng~~l------------~Gr~l~V~rp~~  547 (967)
                      |+|..|            .|+.|.|.+++.
T Consensus       199 m~g~~l~~~~~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          199 MSNQTLLLPSDKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             HTTCCCCCTTSTTGGGGGGSCCCEEEECC-
T ss_pred             hCCCEEeccccccccccCCCCEEEEEEccC
Confidence            999999            899999997654

>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

Probab=99.06  E-value=1.1e-10  Score=120.41  Aligned_cols=82  Identities=20%  Similarity=0.233  Sum_probs=67.0

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+.+|+++|+++|+.||.+..+.       |.....+.++|||||+|.+.++|..|+.+.+..|.|++|.
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~-------i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~  180 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQ-------MRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL  180 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEE-------EEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECE
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEE-------EEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEE
Confidence            357999999999999999999999999644331       1222347789999999999999999999556699999999


Q ss_pred             EeCCCcccc
Q 002093          542 IKRPKEFVE  550 (967)
Q Consensus       542 V~rp~~~~~  550 (967)
                      |.+..+|..
T Consensus       181 V~~~~~y~~  189 (193)
T 2voo_A          181 ILFKDDYFA  189 (193)
T ss_dssp             EEETTTC--
T ss_pred             EEEhHHHHH
Confidence            998777753

>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}

Probab=99.06  E-value=3.5e-10  Score=101.79  Aligned_cols=70  Identities=17%  Similarity=0.208  Sum_probs=53.9

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHHccCcee--e
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALCCDGCSF--S  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~lng~~l--~  536 (967)
                      ..+..+|||+|||+++|+++|+++|+.||.+.            ++.+ ..++|||||+|.+.++|.+   ++|..+  .
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~------------~v~i~~~srGfaFV~F~~~~~A~~---~~~~~~~~~   72 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVV------------DVFIPKPFRAFAFVTFADDKVAQS---LCGEDLIIK   72 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEE------------EEECCSSCCSEEEEEESCHHHHHH---HTTCEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEE------------EEEEeeCCCCEEEEEECCHHHHHH---HcCCCcccC
Confidence            35567999999999999999999999999533            2222 1379999999999999983   455444  5


Q ss_pred             cceeEEeC
Q 002093          537 GSILKIKR  544 (967)
Q Consensus       537 Gr~l~V~r  544 (967)
                      |+.|.|.+
T Consensus        73 g~~v~v~~   80 (89)
T 3d2w_A           73 GISVHISN   80 (89)
T ss_dssp             TEEEEEEE
T ss_pred             CEEEEEEE
Confidence            88888875

>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

Probab=99.04  E-value=1.8e-10  Score=103.00  Aligned_cols=73  Identities=18%  Similarity=0.151  Sum_probs=57.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ...++|||+|||..+|+++|+++|+.||.+..            +.+ ..++|||||+|.+.++|.+|+.. .+.+.|+.
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~------------v~i~~~~~g~afV~f~~~~~a~~~~~~-~~~~~g~~   69 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMD------------VFIPKPFRAFAFVTFADDQIAQSLCGE-DLIIKGIS   69 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCE------------EECCSSCCSCCEEECSCHHHHHHTTTC-EEEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeE------------EEEecCCCCEEEEEECCHHHHHHHhcC-CceeCCEE
Confidence            45689999999999999999999999995332            222 23799999999999999765333 35568899


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |.|.++.
T Consensus        70 l~v~~a~   76 (88)
T 1wf0_A           70 VHISNAE   76 (88)
T ss_dssp             EEEECCC
T ss_pred             EEEEecC
Confidence            9998543

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.04  E-value=1e-10  Score=111.15  Aligned_cols=74  Identities=11%  Similarity=0.138  Sum_probs=63.3

Q ss_pred             CEEEEeCC----CCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcC----HHH----HHHHHH--
Q 002093          464 RRLCVENL----PLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT----AED----ASAALC--  529 (967)
Q Consensus       464 r~LyVgNL----p~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~----~e~----A~~Al~--  529 (967)
                      ..|||+||    |+.+++.+|+++|+.||.+..+.      .+.+..||.++|||||+|.+    +.+    |..|+.  
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~------li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~   76 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFE------AFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKH   76 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEE------EEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEE------EEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHh
Confidence            58999999    99999999999999999755442      55888999999999999996    433    788876  


Q ss_pred             -ccCceeecceeEEe
Q 002093          530 -CDGCSFSGSILKIK  543 (967)
Q Consensus       530 -lng~~l~Gr~l~V~  543 (967)
                       |||..|.|++|+|.
T Consensus        77 ~lng~~I~Gr~irV~   91 (136)
T 2j8a_A           77 ESSGCFIMGFKFEVI   91 (136)
T ss_dssp             TTTCEEETTEEEEEE
T ss_pred             hhcCCeecCcEEEEE
Confidence             79999999999998

>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

Probab=98.96  E-value=2.7e-10  Score=105.76  Aligned_cols=71  Identities=20%  Similarity=0.235  Sum_probs=61.1

Q ss_pred             EcCCCcccCHHHHHHHH------------HhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          579 IGGISRTLSSKMVMEIV------------CAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       579 V~nLp~~~teedL~e~F------------sk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      +.||+..+++++|++.|            ++||.|..|.|+++. +.++|||||+|.+.++|.+|+..|||..|+|+.|.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~   99 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIH   99 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECC
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEE
Confidence            55677777777666555            999999999998875 34699999999999999999999999999999999


Q ss_pred             EEEc
Q 002093          646 AVQA  649 (967)
Q Consensus       646 V~~a  649 (967)
                      |.++
T Consensus       100 v~~s  103 (104)
T 1jmt_A          100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9876

>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}

Probab=98.93  E-value=2e-09  Score=113.10  Aligned_cols=84  Identities=20%  Similarity=0.265  Sum_probs=72.7

Q ss_pred             CCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-----CCCcceeEEEEeCCHHHHHHHHHHh
Q 002093          678 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-----DSNISTIQACEGNENTASAGVGQNL  752 (967)
Q Consensus       678 ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-----~g~~~G~gFVeF~~~e~A~~Ai~~L  752 (967)
                      ++.++.|.|++.+.++.       +++.+||+++|++||.|.+|.|+++.     ++...|++||+|.+.++|.+|++.|
T Consensus       123 ~s~v~~l~n~v~~~e~~-------~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l  195 (222)
T 3dxb_A          123 ESTVMVLRNMVDPKDID-------DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQAL  195 (222)
T ss_dssp             BCSEEEEESSCCGGGCC-------TTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             ccccchhhcCCCHHHHH-------HHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHh
Confidence            46789999999988763       24557899999999999999998764     3478899999999999999999999


Q ss_pred             CCCccCCCcceeEEee
Q 002093          753 TNDETNEKGERLEEVT  768 (967)
Q Consensus       753 nG~~~~~r~~~v~~~~  768 (967)
                      ||+.|+||.+.+....
T Consensus       196 ~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          196 NGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             TTCBSSSSBCEEEECC
T ss_pred             cCceECCeEEEEEEcC
Confidence            9999999999887653

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.78  E-value=2.1e-08  Score=92.30  Aligned_cols=66  Identities=11%  Similarity=0.120  Sum_probs=57.8

Q ss_pred             cccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002093          584 RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  654 (967)
Q Consensus       584 ~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~~  654 (967)
                      ..+++++|+++|++||.|..|.|+.   .++|||||+|.+.++|..|+..++|  +.|++|.|.++.+...
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~---~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~~~~   92 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS---KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEGQPQ   92 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES---SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSCCCC
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc---CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccCCCC
Confidence            4689999999999999999999874   4799999999999999999998655  6799999999866543

>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*

Probab=98.78  E-value=9.8e-09  Score=114.59  Aligned_cols=72  Identities=22%  Similarity=0.297  Sum_probs=59.2

Q ss_pred             CCCCCEEEEeC--CCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          460 NRPMRRLCVEN--LPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgN--Lp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      +.+.++|||||  |++.+||++|+++|++||.            |..+.+..+||||||+|.+.++|.+|++ |||..+.
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~------------V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~   82 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGL------------VDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSC------------EEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCC------------eEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCccc
Confidence            46678999999  5789999999999999995            3344444579999999999999999999 9998884


Q ss_pred             ---cc--eeEEe
Q 002093          537 ---GS--ILKIK  543 (967)
Q Consensus       537 ---Gr--~l~V~  543 (967)
                         |+  +|.|.
T Consensus        83 ~~~g~~~~ly~~   94 (345)
T 3tht_A           83 DDLGQKITLYLN   94 (345)
T ss_dssp             CTTSCEEECEEE
T ss_pred             cccCCceEEEEE
Confidence               44  45555

>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*

Probab=98.78  E-value=7.6e-09  Score=115.51  Aligned_cols=75  Identities=19%  Similarity=0.287  Sum_probs=64.5

Q ss_pred             cCCCceEEEcC--CCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc---CCe--E
Q 002093          571 KDSPHKIFIGG--ISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQ--V  643 (967)
Q Consensus       571 ~~~~~~L~V~n--Lp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~---~Gr--~  643 (967)
                      ..+..+|||+|  |+..+|+++|+++|++||.|..|.+..    ++|||||+|.+.++|.+|++.|||..+   .|+  +
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~----~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~   90 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKIT   90 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT----TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceE
Confidence            34568999999  578999999999999999999987753    689999999999999999999999877   355  5


Q ss_pred             EEEEEc
Q 002093          644 LTAVQA  649 (967)
Q Consensus       644 I~V~~a  649 (967)
                      |.|.++
T Consensus        91 ly~~~~   96 (345)
T 3tht_A           91 LYLNFV   96 (345)
T ss_dssp             CEEEEC
T ss_pred             EEEEEe
Confidence            666666

>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}

Probab=98.69  E-value=4.3e-09  Score=110.62  Aligned_cols=44  Identities=25%  Similarity=0.295  Sum_probs=42.3

Q ss_pred             cceEEEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHHhh
Q 002093          921 PGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR  964 (967)
Q Consensus       921 ~G~VyVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~~  964 (967)
                      .|+|||+|.+.++|.+|+++||||||+||+|.|.|++.+.|++.
T Consensus       175 ~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~~~~f~~~  218 (222)
T 3dxb_A          175 IVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDNS  218 (222)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECCHHHHHTT
T ss_pred             eeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcCHHHhhhc
Confidence            48999999999999999999999999999999999999999875

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.55  E-value=1.4e-07  Score=86.82  Aligned_cols=58  Identities=10%  Similarity=0.014  Sum_probs=51.0

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          706 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       706 eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ++|+++|++||.|+.|.|+.    ..+|||||+|.+.++|..|+..++|  +.++.++|..+..
T Consensus        32 ~~L~~~F~~~G~V~~v~i~~----~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~   89 (100)
T 2d9o_A           32 DVLLRLLQKYGEVLNLVLSS----KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEG   89 (100)
T ss_dssp             HHHHHHHHTTSCEEEEEEES----SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSC
T ss_pred             HHHHHHHHhcCCEEEEEEcc----CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccC
Confidence            67999999999999999983    5789999999999999999999766  5789998877654

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.42  E-value=8.5e-07  Score=79.24  Aligned_cols=59  Identities=15%  Similarity=0.143  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEeec
Q 002093          703 EVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  769 (967)
Q Consensus       703 ei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~~  769 (967)
                      ++..+|.+.|.+||.|..|+|+.+.       +||+|.+.++|.+|++ |||..++|+.++|+....
T Consensus        27 ~l~~~L~~~F~~~G~Vi~vr~~~d~-------~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt~   85 (91)
T 2dnr_A           27 ALIDELLQQFASFGEVILIRFVEDK-------MWVTFLEGSSALNVLS-LNGKELLNRTITIALKSP   85 (91)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEECSSS-------EEEEESSHHHHHHGGG-GTTCEETTEEEEEEECCC
T ss_pred             HHHHHHHHHHHhCCCeEEEEEecCC-------EEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCCC
Confidence            5567799999999999999999853       7999999999999998 999999999999988653

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.36  E-value=5.8e-07  Score=80.30  Aligned_cols=57  Identities=12%  Similarity=0.269  Sum_probs=52.3

Q ss_pred             HHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          589 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       589 edL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .+|.+.|++||.|..++++.+      .+||+|.+.++|.+|+. |||..++|+.|+|..+.|+
T Consensus        30 ~~L~~~F~~~G~Vi~vr~~~d------~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt~d   86 (91)
T 2dnr_A           30 DELLQQFASFGEVILIRFVED------KMWVTFLEGSSALNVLS-LNGKELLNRTITIALKSPS   86 (91)
T ss_dssp             HHHHHHHHTTCCEEEEEECSS------SEEEEESSHHHHHHGGG-GTTCEETTEEEEEEECCCS
T ss_pred             HHHHHHHHhCCCeEEEEEecC------CEEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCCCC
Confidence            578999999999999999876      38999999999999998 9999999999999998764

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

Probab=98.34  E-value=6.6e-07  Score=84.81  Aligned_cols=76  Identities=11%  Similarity=0.026  Sum_probs=64.8

Q ss_pred             ccCCCceEEEcCCCcc-cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecC-cchHHHHHHHhC--CCccCCeEEE
Q 002093          570 VKDSPHKIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD-QLVTPKAIAGLN--GLKVGGQVLT  645 (967)
Q Consensus       570 ~~~~~~~L~V~nLp~~-~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~-~e~A~~Al~~Ln--G~~~~Gr~I~  645 (967)
                      .......|||+||+.. ++.++|+++|++||.|..|.++.+    .-.|||+|.+ ..+|..|+..||  |..|.|..++
T Consensus        14 ~~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g----~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~   89 (121)
T 1owx_A           14 EEKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVT   89 (121)
T ss_dssp             SCCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEE
T ss_pred             cccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecC----CCEEEEEECCChHHHHHHHHHhhcCCcEEeCcEEE
Confidence            3456788999999999 999999999999999999999776    3479999999 789999999995  6788887777


Q ss_pred             EEEc
Q 002093          646 AVQA  649 (967)
Q Consensus       646 V~~a  649 (967)
                      +...
T Consensus        90 ~evL   93 (121)
T 1owx_A           90 WEVL   93 (121)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            6543

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

Probab=98.18  E-value=2.5e-06  Score=80.83  Aligned_cols=71  Identities=10%  Similarity=-0.024  Sum_probs=59.5

Q ss_pred             CCCCEEEEeCCCCc-chHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcC-HHHHHHHHH-cc--Ccee
Q 002093          461 RPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT-AEDASAALC-CD--GCSF  535 (967)
Q Consensus       461 ~~~r~LyVgNLp~~-~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~-~e~A~~Al~-ln--g~~l  535 (967)
                      ...+.|||+||+.. ++.++|+++|+.||            .|..+........|||.|.+ +.+|..|+. ||  +..|
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G------------~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~~~~i   83 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHG------------EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQL   83 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSC------------CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCT
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcC------------CEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcCCcEE
Confidence            45678999999999 99999999999998            34555555556689999999 899999999 84  6888


Q ss_pred             ecceeEEe
Q 002093          536 SGSILKIK  543 (967)
Q Consensus       536 ~Gr~l~V~  543 (967)
                      .|..+.+.
T Consensus        84 ~g~~~~~e   91 (121)
T 1owx_A           84 RNKEVTWE   91 (121)
T ss_dssp             TSSSEEEE
T ss_pred             eCcEEEEE
Confidence            99888776

>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

Probab=98.15  E-value=2.8e-06  Score=76.23  Aligned_cols=71  Identities=13%  Similarity=0.289  Sum_probs=58.7

Q ss_pred             CceEEEcCCCcc------cCH---HHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEE
Q 002093          574 PHKIFIGGISRT------LSS---KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  644 (967)
Q Consensus       574 ~~~L~V~nLp~~------~te---edL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I  644 (967)
                      ..+|+|.-++..      ..+   .+|.+.|..||.|..++++.+.      +||+|.+.++|.+||. |||..++|+.|
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~------~fVtF~d~~sAl~AI~-ldG~~v~Gr~L   87 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ------MLVTFADSHSALSVLD-VDGMKVKGRAV   87 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE------EEEECSCSHHHHHHHH-GGGSEETTEEE
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc------EEEEEcChHHHHHHHh-cCCeeeCCeEE
Confidence            457777766522      221   4689999999999999998873      9999999999999998 99999999999


Q ss_pred             EEEEccc
Q 002093          645 TAVQAVL  651 (967)
Q Consensus       645 ~V~~a~~  651 (967)
                      +|.+-.+
T Consensus        88 ~V~~k~~   94 (95)
T 1ufw_A           88 KISGPSS   94 (95)
T ss_dssp             EEECCCC
T ss_pred             EEeccCC
Confidence            9987543

>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

Probab=98.14  E-value=1.4e-06  Score=78.26  Aligned_cols=58  Identities=7%  Similarity=0.122  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          702 EEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       702 eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      +++..+|.+.|..||+|..|+|+.+.       +||+|.+.++|.+||. |||.+++|+.++|+..
T Consensus        35 ~~l~~~L~~~F~~~G~Vilvr~v~d~-------~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~~k   92 (95)
T 1ufw_A           35 EDLRTELMQTLGSYGTIVLVRINQGQ-------MLVTFADSHSALSVLD-VDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHHHHHSCCSEEEEETTE-------EEEECSCSHHHHHHHH-GGGSEETTEEEEEECC
T ss_pred             HHHHHHHHHHHHHCCCEEEEEEecCc-------EEEEEcChHHHHHHHh-cCCeeeCCeEEEEecc
Confidence            35567799999999999999999864       8999999999999998 9999999999998754

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.98  E-value=2.4e-05  Score=71.64  Aligned_cols=75  Identities=17%  Similarity=0.195  Sum_probs=68.6

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhc-----CCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAF-----GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~-----G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      .+..++|-|-|||..+++..|+.++++|     |.|..|.++.|    -|-|+|+|.+...|.+|.-+|+|..|.|++|.
T Consensus        18 ~~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pD----H~GAivef~d~~~AgKasLaL~G~ef~gr~Lr   93 (117)
T 2l9w_A           18 KELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSD----FNGAIIIFRDSKFAAKMLMILNGSQFQGKVIR   93 (117)
T ss_dssp             TTTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETT----TTEEEEECSCHHHHHHHHHHHSSEEETTEEEE
T ss_pred             ccCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecC----CCceEEEEccchhhHHHHhhcCCeeecCeEEE
Confidence            3457899999999999999999999999     99999999877    77899999999999999999999999999999


Q ss_pred             EEEc
Q 002093          646 AVQA  649 (967)
Q Consensus       646 V~~a  649 (967)
                      |...
T Consensus        94 ~gTv   97 (117)
T 2l9w_A           94 SGTI   97 (117)
T ss_dssp             EECH
T ss_pred             ecCH
Confidence            8643

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.43  E-value=0.00039  Score=63.70  Aligned_cols=76  Identities=16%  Similarity=0.220  Sum_probs=63.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|-+-|||-.++...|+.|++++..+      .. ..+..+..-..-+=|+|+|.+...|-+|.- |+|..|.|++|
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i------~~-g~i~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~L   92 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHI------NE-KDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVI   92 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCC------CT-TTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhcc------Cc-cceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEE
Confidence            36899999999999999999999998321      11 144566666778899999999999998886 99999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +++-
T Consensus        93 r~gT   96 (117)
T 2l9w_A           93 RSGT   96 (117)
T ss_dssp             EEEC
T ss_pred             EecC
Confidence            9984

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.99  E-value=0.0027  Score=57.70  Aligned_cols=93  Identities=18%  Similarity=0.256  Sum_probs=69.6

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|.|.|||+.+.++.|.-+|+.--. .|      +-+|.++..-.  +-|+|+|.+...|...|+.....|.|.+|.
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rr-sG------GG~V~~v~~~~--~~AvItF~d~~va~rVL~k~~H~L~~~~Ls   77 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRR-SG------GGPVLSWQRLG--CGGVLTFREPADAERVLAQADHELHGAQLS   77 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTT-TC------CCCEEEEEEET--TEEEEEESSHHHHHHHHTCSCCBSSSSBCE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCc-CC------CceeeEEEEcC--CcEEEEEcChHHHHHHhcCCcceecCeEEE
Confidence            4579999999999999999999976211 11      12556665544  889999999999999999778889999999


Q ss_pred             EeCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccC
Q 002093          542 IKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLS  587 (967)
Q Consensus       542 V~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~t  587 (967)
                      |..   |.                     +..+.+|++.+|++.++
T Consensus        78 V~P---~~---------------------~~~~~r~ll~gl~~~t~   99 (104)
T 2dhx_A           78 LRP---AP---------------------PRAPARLLLQGLPPGTS   99 (104)
T ss_dssp             EEE---CC---------------------CCCCCCCCCCSCCCCCC
T ss_pred             EEc---CC---------------------CCCcceEeeecCCCCCC
Confidence            972   11                     22456788888887654

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=96.77  E-value=0.0076  Score=54.99  Aligned_cols=76  Identities=9%  Similarity=0.041  Sum_probs=64.7

Q ss_pred             CCceEEEcCCCccc-C----HHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTL-S----SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~-t----eedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      .+++|+|.||+..+ .    .+.++++|..|+++..+.+.+    +-.=+.|.|.++++|.+|...|||..|+|..|+|-
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lk----SFRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~Y   79 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLY   79 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEE
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecC----cceEEEEEeCChHHHHHHHHHhccceecCceeEEE
Confidence            47899999998754 2    257899999999998887766    34567899999999999999999999999999999


Q ss_pred             EcccC
Q 002093          648 QAVLD  652 (967)
Q Consensus       648 ~a~~~  652 (967)
                      ++.+.
T Consensus        80 Fgq~~   84 (104)
T 1wey_A           80 FAQTL   84 (104)
T ss_dssp             CCCCS
T ss_pred             ecCCC
Confidence            98743

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=95.90  E-value=0.016  Score=52.87  Aligned_cols=69  Identities=13%  Similarity=0.039  Sum_probs=55.8

Q ss_pred             CCEEEEeCCCCcc-hH----HHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceee
Q 002093          463 MRRLCVENLPLSA-SE----KALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (967)
Q Consensus       463 ~r~LyVgNLp~~~-Te----edL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~  536 (967)
                      +.+|+|.||+..+ +.    +.++++|..|+.            +.....-+|-.-..|.|.++++|.+|-. |++..|.
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~------------~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh~~~f~   72 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDK------------DTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFL   72 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCS------------SCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEET
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCc------------CcceeecCcceEEEEEeCChHHHHHHHHHhccceec
Confidence            4689999999876 32    567788877763            3445555666778999999999999999 9999999


Q ss_pred             cceeEEe
Q 002093          537 GSILKIK  543 (967)
Q Consensus       537 Gr~l~V~  543 (967)
                      |+.|+|-
T Consensus        73 g~~~r~Y   79 (104)
T 1wey_A           73 GKEMKLY   79 (104)
T ss_dssp             TEECEEE
T ss_pred             CceeEEE
Confidence            9999986

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=95.69  E-value=0.019  Score=51.64  Aligned_cols=57  Identities=12%  Similarity=0.243  Sum_probs=48.4

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL  634 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L  634 (967)
                      +...+.++| ++|..+...||.++|+.||.| .|.++.|     .-|||.|.+++.|..|+..+
T Consensus        13 p~r~HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidD-----TsAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           13 PKRDHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-----TSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CCCCSEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEET-----TEEEEECSCHHHHHHHHHHH
T ss_pred             CCCCeEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcC-----CeEEEEecCHHHHHHHHHhc
Confidence            344577778 999999999999999999976 4667665     47999999999999999876

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=94.98  E-value=0.075  Score=49.76  Aligned_cols=71  Identities=13%  Similarity=0.211  Sum_probs=59.1

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC-eEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-QVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G-r~I~V~~a  649 (967)
                      ...-|.|-++|+.. -..|...|++||.|......    ....+..|.|.+..+|.+||. .||..|+| -.|-|.+.
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~----~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMS----NTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEEC----SSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEEC
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccC----CCCCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEEEEEC
Confidence            46789999999885 56788899999999887751    246799999999999999996 89999985 66777775

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=94.88  E-value=0.059  Score=48.17  Aligned_cols=65  Identities=17%  Similarity=0.191  Sum_probs=55.0

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC----CCCEEEEeecCcchHHHHHHHhCCCcc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH----EEPCAFIEYVDQLVTPKAIAGLNGLKV  639 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~----skG~aFVeF~~~e~A~~Al~~LnG~~~  639 (967)
                      .+|.|.+||+.+|++++.+.++.+..+....++..+.+    .-.-|||.|.+.+++..-...++|+.|
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F   70 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEE
Confidence            47899999999999999999999888776766655322    246899999999999999999999877

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=94.37  E-value=0.14  Score=48.00  Aligned_cols=68  Identities=15%  Similarity=0.200  Sum_probs=53.7

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeec-ceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSG-SILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~G-r~l~  541 (967)
                      ...|.|-+.|+.. -..|...|+.||.            |++........+-.|.|.+..+|.+||..||..|.| ..|-
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G~------------Iv~~~~~~~~NWihI~Y~s~~~A~rAL~kNG~ii~g~~mIG   90 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYGN------------ILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGESIMIG   90 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSC------------EEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTTEECE
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCc------------EEEeccCCCCCeEEEEeCCHHHHHHHHHhCCeEecCCEEEE
Confidence            4689999999986 5577888999994            344444446789999999999999999999999975 4455


Q ss_pred             Ee
Q 002093          542 IK  543 (967)
Q Consensus       542 V~  543 (967)
                      |.
T Consensus        91 V~   92 (119)
T 1wwh_A           91 VK   92 (119)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=94.25  E-value=0.038  Score=49.42  Aligned_cols=70  Identities=17%  Similarity=0.256  Sum_probs=48.8

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeec-CCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~-~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      .+|.|++||+++||+++.+.+..+....-+..+++.     ...+ ..-+.|||.|.+.+++..... ++|..|.+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~-----~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~   73 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSND-----TSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESC-----CSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCc-----cCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcC
Confidence            479999999999999999998765421111111111     0001 123569999999999999999 999988653

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=93.81  E-value=0.08  Score=47.74  Aligned_cols=55  Identities=13%  Similarity=0.256  Sum_probs=46.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  635 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~Ln  635 (967)
                      .+.++| ++|..+...||.++|+.||.| .|.++.|     .-|||.|.+++.|..|+..+.
T Consensus         6 ~HV~~l-~FP~ewKt~Di~~lFs~fggv-~I~WidD-----TsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            6 DHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-----TSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEEE-ECCTTCCHHHHHHHTTTSEEE-EEEEEET-----TEEEEEEEEECHHHHHHHHHT
T ss_pred             CeEEEE-eCChhhhhHHHHHHHhccCCE-EEEEEcC-----CeEEEEecCHHHHHHHHHhcc
Confidence            355667 999999999999999999955 5777765     479999999999999998764

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=93.79  E-value=0.22  Score=45.25  Aligned_cols=72  Identities=10%  Similarity=0.119  Sum_probs=59.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHh-----cCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCA-----FGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk-----~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ...+|.|.|||+.+.++.|.-+|++     -|.|..|....      +-|+|+|.+...|++.|+ -.-+.|.|..|.|.
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~------~~AvItF~d~~va~rVL~-k~~H~L~~~~LsV~   79 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG------CGGVLTFREPADAERVLA-QADHELHGAQLSLR   79 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET------TEEEEEESSHHHHHHHHT-CSCCBSSSSBCEEE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC------CcEEEEEcChHHHHHHhc-CCcceecCeEEEEE
Confidence            4678999999999999999999997     25777776632      789999999999999886 33578899999997


Q ss_pred             Eccc
Q 002093          648 QAVL  651 (967)
Q Consensus       648 ~a~~  651 (967)
                      ...+
T Consensus        80 P~~~   83 (104)
T 2dhx_A           80 PAPP   83 (104)
T ss_dssp             ECCC
T ss_pred             cCCC
Confidence            7544

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=92.82  E-value=0.09  Score=49.93  Aligned_cols=77  Identities=17%  Similarity=0.223  Sum_probs=57.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeec--------------CC-CCCCEEEEeecCcchHHHHHHHhCC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN--------------ED-HEEPCAFIEYVDQLVTPKAIAGLNG  636 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d--------------~~-~skG~aFVeF~~~e~A~~Al~~LnG  636 (967)
                      ....|.|-+.|+..+ ..|.+.|++||.|.. +.+...              +. ++..+..|.|.+..+|.+||. .||
T Consensus         6 ~e~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG   83 (132)
T 3p3d_A            6 GELAILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENG   83 (132)
T ss_dssp             --CEEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTT
T ss_pred             CceEEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCC
Confidence            356788889987765 567789999999865 322110              00 135789999999999999996 899


Q ss_pred             CccCCeEEEEEEccc
Q 002093          637 LKVGGQVLTAVQAVL  651 (967)
Q Consensus       637 ~~~~Gr~I~V~~a~~  651 (967)
                      ..|+|..|-|.+..+
T Consensus        84 ~ii~G~mIGV~Py~~   98 (132)
T 3p3d_A           84 AVFNGVLLGVIPYTK   98 (132)
T ss_dssp             CEETTEECEEEECCH
T ss_pred             eEeCcEEEEEEECCH
Confidence            999999888877743

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=91.09  E-value=0.14  Score=46.07  Aligned_cols=71  Identities=15%  Similarity=0.187  Sum_probs=47.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeec-CCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~-~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .+-+|.|+.||+.+||+++.+.+.++-...-...+++.     ...+ ..-..|||.|.+.++...... ++|..|.+
T Consensus         8 ~~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~-----~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D   80 (97)
T 2l08_A            8 HSHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAAD-----LSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLD   80 (97)
T ss_dssp             CCCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCC-----SSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEEC
T ss_pred             cceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCc-----cCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEe
Confidence            34589999999999999987776543211001111110     0111 122469999999999999999 99988855

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=90.19  E-value=0.61  Score=41.95  Aligned_cols=54  Identities=24%  Similarity=0.338  Sum_probs=42.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC  529 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~  529 (967)
                      ...+-++| ++|+.+.-.||.++|++||   |+.        +. .+  +-.-|||.|.+++.|..||.
T Consensus        14 ~r~HVf~l-~FP~ewKt~DI~~lFs~fg---gv~--------I~-Wi--dDTsAlvvf~~~~~a~~al~   67 (100)
T 1whv_A           14 KRDHVLHV-TFPKEWKTSDLYQLFSAFG---NIQ--------IS-WI--DDTSAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CCCSEEEE-ECCTTCCHHHHHHHHTTTC---SCC--------CE-EE--ETTEEEEECSCHHHHHHHHH
T ss_pred             CCCeEEEE-eCChhhhhHHHHHHhhccC---CEE--------EE-EE--cCCeEEEEecCHHHHHHHHH
Confidence            34566777 9999999999999999998   220        11 11  25679999999999999998

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=88.29  E-value=0.22  Score=57.36  Aligned_cols=58  Identities=21%  Similarity=0.258  Sum_probs=39.5

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCc-EEEEEEcCHHHHHHHHHccC
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG-QAFVEFLTAEDASAALCCDG  532 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG-~aFVeF~~~e~A~~Al~lng  532 (967)
                      ..|.|||. .|..+++.+|.++|++||.+.            ++..-.++| ||.|||.+.+++..++...+
T Consensus        52 a~rsv~v~-~~~~~~~~~l~~y~~~~g~i~------------~~~~~~~~g~~~~vef~~~~~~~~~~~~~~  110 (464)
T 3pq1_A           52 AQRTVLIH-CPEKISENKFLKYLSQFGPIN------------NHFFYESFGLYAVVEFCQKESIGSLQNGTH  110 (464)
T ss_dssp             HHTEEEEE-ECCC---CHHHHHHGGGSCCC------------CEEEECSSSEEEEEECC---CCHHHHSSCC
T ss_pred             hcceEEEE-cCCCCCHHHHHHHHHhcCCcc------------eEEEEccCCeEEEEEeCCHHHHHHHHhccC
Confidence            35799997 799999999999999999533            333333444 99999999999998876433

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=87.34  E-value=0.33  Score=55.97  Aligned_cols=55  Identities=15%  Similarity=0.263  Sum_probs=41.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHH
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIA  632 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~  632 (967)
                      .+.|||. .|..+++.+|.+.|++||+|.++.+..+   ..-||.|||.+.+++..++.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~---~g~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYES---FGLYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECS---SSEEEEEECC---CCHHHHS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEcc---CCeEEEEEeCCHHHHHHHHh
Confidence            4689997 6888999999999999999999988765   23599999999999987754

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=87.33  E-value=0.26  Score=44.43  Aligned_cols=66  Identities=12%  Similarity=0.122  Sum_probs=48.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC----CCCEEEEeecCcchHHHHHHHhCCCcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH----EEPCAFIEYVDQLVTPKAIAGLNGLKV  639 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~----skG~aFVeF~~~e~A~~Al~~LnG~~~  639 (967)
                      .-+|.|..||+.+|++++.+.++..-.+.....+....+    .-.-|||.|.+.++...-...++|..|
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F   78 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIF   78 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            458999999999999988777766544333333222211    135789999999999999999999776

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=86.88  E-value=1.2  Score=42.35  Aligned_cols=79  Identities=15%  Similarity=0.151  Sum_probs=52.1

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCe-------eeeeec-CCCcEEEEEEcCHHHHHHHHHccCcee
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPC-------IGCVIQ-REKGQAFVEFLTAEDASAALCCDGCSF  535 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v-------~~~~~~-~skG~aFVeF~~~e~A~~Al~lng~~l  535 (967)
                      ..|.|-+.|+..+. .|...|+.||.+..-.........       ...... ...++..|.|.++.+|.+||..||..|
T Consensus         8 ~~VtVFGFp~~~~~-~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii   86 (132)
T 3p3d_A            8 LAILVFGYPETMAN-QVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVF   86 (132)
T ss_dssp             CEEEEECCCGGGHH-HHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEE
T ss_pred             eEEEEEecCHHHHH-HHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEe
Confidence            46888899776654 677899999965441111100000       000000 135678999999999999999999999


Q ss_pred             ecceeEEe
Q 002093          536 SGSILKIK  543 (967)
Q Consensus       536 ~Gr~l~V~  543 (967)
                      .|.-|-|.
T Consensus        87 ~G~mIGV~   94 (132)
T 3p3d_A           87 NGVLLGVI   94 (132)
T ss_dssp             TTEECEEE
T ss_pred             CcEEEEEE
Confidence            99866665

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=85.00  E-value=0.49  Score=42.68  Aligned_cols=53  Identities=19%  Similarity=0.259  Sum_probs=41.4

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD  531 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln  531 (967)
                      +-++| ++|+.+.-.||.++|++||   |+          .+..- +-.-|||.|.+++.|..||. ++
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fg---gv----------~I~Wi-dDTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFG---NI----------QISWI-DDTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSE---EE----------EEEEE-ETTEEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccC---CE----------EEEEE-cCCeEEEEecCHHHHHHHHHhcc
Confidence            34666 9999999999999999998   22          11111 25679999999999999998 53

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	967
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	8e-11
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-07
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	0.002
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	2e-07
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	5e-05
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	4e-07
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-07
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	5e-07
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	6e-07
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	0.003
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-06
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-05
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	1e-06
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-06
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	4e-05
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	2e-06
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-06
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-05
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	3e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	6e-05
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	4e-06
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	0.004
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-06
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	0.001
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	5e-06
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	7e-06
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	0.001
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	7e-06
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	8e-06
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	2e-04
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	8e-06
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	8e-06
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	9e-05
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	8e-06
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	0.003
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-05
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	3e-05
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	2e-05
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-05
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	0.004
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	3e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-05
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-05
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-04
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	4e-05
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	1e-04
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	5e-05
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	5e-05
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	6e-05
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	9e-05
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	0.002
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	9e-05
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-04
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-04
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	2e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	2e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	5e-04
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	2e-04
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	3e-04
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-04
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	4e-04
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	5e-04
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	5e-04
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	6e-04
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	0.003
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	6e-04
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	7e-04
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	7e-04
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	0.001
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.001
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	0.001
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	0.002

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.1 bits (137), Expect = 8e-11
 Identities = 29/85 (34%), Positives = 48/85 (56%), Gaps = 1/85 (1%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           RRL V N+P   +E+A+M+F N  +   G+       P +   I ++K  AF+EF + ++
Sbjct: 2   RRLYVGNIPFGITEEAMMDFFNAQMRLGGL-TQAPGNPVLAVQINQDKNFAFLEFRSVDE 60

Query: 524 ASAALCCDGCSFSGSILKIKRPKEF 548
            + A+  DG  F G  LKI+RP ++
Sbjct: 61  TTQAMAFDGIIFQGQSLKIRRPHDY 85

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.7 bits (113), Expect = 2e-07
 Identities = 16/71 (22%), Positives = 37/71 (52%)

Query: 574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAG 633
           P  +++G +SR ++  +++++    GP K+          +P  F+E+ +      A+A 
Sbjct: 8   PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAA 67

Query: 634 LNGLKVGGQVL 644
           +NG K+ G+ +
Sbjct: 68  MNGRKILGKEV 78

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.2 bits (83), Expect = 0.002
 Identities = 18/92 (19%), Positives = 32/92 (34%), Gaps = 9/92 (9%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAF 515
           + + +   R L V NL    +E  +++  +        + +                  F
Sbjct: 1   MMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYC--------F 52

Query: 516 VEFLTAEDASAALC-CDGCSFSGSILKIKRPK 546
           VEF    DA+AAL   +G    G  +K+    
Sbjct: 53  VEFYEHRDAAAALAAMNGRKILGKEVKVNWAT 84

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.3 bits (112), Expect = 2e-07
 Identities = 11/80 (13%), Positives = 22/80 (27%), Gaps = 6/80 (7%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           ++ +  L    +++ L E+   F      + +    P          G  FV F+     
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQF--GEVKECLVMRDPLTKRSR----GFGFVTFMDQAGV 55

Query: 525 SAALCCDGCSFSGSILKIKR 544
              L           +  K 
Sbjct: 56  DKVLAQSRHELDSKTIDPKV 75

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.3 bits (94), Expect = 5e-05
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAG 633
           K+FIGG+S   + + + E    FG +K      +   +      F+ ++DQ    K +A 
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA- 60

Query: 634 LNGLKVGGQVLT 645
            +  ++  + + 
Sbjct: 61  QSRHELDSKTID 72

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.7 bits (110), Expect = 4e-07
 Identities = 15/91 (16%), Positives = 35/91 (38%), Gaps = 7/91 (7%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           +++   R + ++  P  A+   + E+L +            ++     + +  KG  FV 
Sbjct: 1   KNDVKNRSVYIKGFPTDATLDDIKEWLEDK-------GQVLNIQMRRTLHKAFKGSIFVV 53

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
           F + E A   +   G  +  + L I    ++
Sbjct: 54  FDSIESAKKFVETPGQKYKETDLLILFKDDY 84

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (109), Expect = 5e-07
 Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 2/73 (2%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIA 632
           HK+FIGG+   L+   V E++ +FGPLKA++   +         AF EYVD  VT +AIA
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 633 GLNGLKVGGQVLT 645
           GLNG+++G + L 
Sbjct: 62  GLNGMQLGDKKLL 74

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 1e-05
 Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 7/82 (8%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
            +L +  LP   ++  + E L +F        V  S           KG AF E++    
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATG------LSKGYAFCEYVDINV 55

Query: 524 ASAALC-CDGCSFSGSILKIKR 544
              A+   +G       L ++R
Sbjct: 56  TDQAIAGLNGMQLGDKKLLVQR 77

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.8 bits (115), Expect = 5e-07
 Identities = 29/185 (15%), Positives = 60/185 (32%), Gaps = 23/185 (12%)

Query: 463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAE 522
           +R+L +  L    ++++L      +        +   +       +R +G  FV + T E
Sbjct: 6   LRKLFIGGLSFETTDESLRSHFEQW------GTLTDCVVMRDPNTKRSRGFGFVTYATVE 59

Query: 523 DASAALCCDGCSFSGSILKIKRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGI 582
           +  AA+        G +++ KR     +     A                +  KIF+GGI
Sbjct: 60  EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGA--------------HLTVKKIFVGGI 105

Query: 583 SRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVG 640
                   + +    +G ++      +    +    AF+ + D     K +       V 
Sbjct: 106 KEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVN 164

Query: 641 GQVLT 645
           G    
Sbjct: 165 GHNCE 169

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (109), Expect = 6e-07
 Identities = 16/82 (19%), Positives = 32/82 (39%), Gaps = 6/82 (7%)

Query: 463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAE 522
           +R+L +  L    ++++L      +   +    V    P         +G  FV + T E
Sbjct: 6   LRKLFIGGLSFETTDESLRSHFEQW--GTLTDCVVMRDPNTKRS----RGFGFVTYATVE 59

Query: 523 DASAALCCDGCSFSGSILKIKR 544
           +  AA+        G +++ KR
Sbjct: 60  EVDAAMNARPHKVDGRVVEPKR 81

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 0.003
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 3/81 (3%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPK 629
           +   K+FIGG+S   + + +      +G L       + + +      F+ Y        
Sbjct: 4   EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 63

Query: 630 AIAGLNGLKVGGQVLTAVQAV 650
           A+      KV G+V+   +AV
Sbjct: 64  AMN-ARPHKVDGRVVEPKRAV 83

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.7 bits (108), Expect = 1e-06
 Identities = 13/53 (24%), Positives = 21/53 (39%)

Query: 912 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 964
             +   +   G +FVE+        A   L  R F +R+V  +Y   + Y  R
Sbjct: 49  PVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR 101

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (96), Expect = 5e-05
 Identities = 24/52 (46%), Positives = 34/52 (65%), Gaps = 2/52 (3%)

Query: 677 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD 728
            PTEVL L N+  PE    L + E EE++EDVR EC+++G VKS+ + +  D
Sbjct: 2   HPTEVLCLMNMVLPEEL--LDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVD 51

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 1e-06
 Identities = 20/106 (18%), Positives = 44/106 (41%), Gaps = 11/106 (10%)

Query: 447 LNVSMDSVQLTQSNR---PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI 503
           +  ++++V L +  R     R+L +  L    +E++L  +   +        +   +   
Sbjct: 1   MEKTLETVPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQW------GKLTDCVVMR 54

Query: 504 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR--PKE 547
               +R +G  FV F +  +  AA+     S  G +++ KR   +E
Sbjct: 55  DPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVARE 100

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 7/89 (7%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
           +   ++ V N+P  A+++ + E  + F      +     LP         +G  FV+F+T
Sbjct: 6   QTTSKILVRNIPFQANQREIRELFSTF-----GELKTVRLPKKMTGTGAHRGFGFVDFIT 60

Query: 521 AEDASAAL--CCDGCSFSGSILKIKRPKE 547
            +DA  A    C      G  L ++    
Sbjct: 61  KQDAKKAFNALCHSTHLYGRRLVLEWADS 89

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.1 bits (96), Expect = 4e-05
 Identities = 15/79 (18%), Positives = 29/79 (36%), Gaps = 4/79 (5%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE---EPCAFIEYVDQLVT 627
           K +  KI +  I    + + + E+   FG LK                  F++++ +   
Sbjct: 5   KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDA 64

Query: 628 PKAIAGL-NGLKVGGQVLT 645
            KA   L +   + G+ L 
Sbjct: 65  KKAFNALCHSTHLYGRRLV 83

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 2e-06
 Identities = 17/77 (22%), Positives = 38/77 (49%), Gaps = 4/77 (5%)

Query: 567 SGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQ 624
           S  ++D+   +++ G+ +T++ K + ++   +G +      V++         FI +  +
Sbjct: 1   SASIRDA--NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKR 58

Query: 625 LVTPKAIAGLNGLKVGG 641
           +   +AI GLNG K  G
Sbjct: 59  IEAEEAIKGLNGQKPSG 75

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.5 bits (105), Expect = 2e-06
 Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL 634
           K+ +  +   +S   + E+   FG LK A             A + +  +    KA+   
Sbjct: 2   KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 61

Query: 635 NGLKVGGQVL 644
           NG+ + G+ +
Sbjct: 62  NGVPLDGRPM 71

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.5 bits (97), Expect = 2e-05
 Identities = 18/80 (22%), Positives = 25/80 (31%), Gaps = 8/80 (10%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           +L V NL    S+  + E    F                     R  G A V F    DA
Sbjct: 2   KLLVSNLDFGVSDADIQELFAEF-------GTLKKAAVHYDRSGRSLGTADVHFERKADA 54

Query: 525 SAALC-CDGCSFSGSILKIK 543
             A+   +G    G  + I+
Sbjct: 55  LKAMKQYNGVPLDGRPMNIQ 74

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 44.2 bits (104), Expect = 3e-06
 Identities = 13/68 (19%), Positives = 30/68 (44%), Gaps = 2/68 (2%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAG 633
            +++  + RT++   +  I   +G +   +   ++    P   AF+ Y  +    +AI+ 
Sbjct: 8   NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 67

Query: 634 LNGLKVGG 641
           LN +   G
Sbjct: 68  LNNVIPEG 75

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 40.3 bits (94), Expect = 6e-05
 Identities = 15/81 (18%), Positives = 27/81 (33%), Gaps = 7/81 (8%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
             L V NLP + ++  L      +        +         +  R +G AFV +   E+
Sbjct: 7   TNLYVTNLPRTITDDQLDTIFGKY------GSIVQKNILRDKLTGRPRGVAFVRYNKREE 60

Query: 524 ASAAL-CCDGCSFSGSILKIK 543
           A  A+   +     G    + 
Sbjct: 61  AQEAISALNNVIPEGGSQPLS 81

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 4e-06
 Identities = 8/82 (9%), Positives = 27/82 (32%), Gaps = 6/82 (7%)

Query: 463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAE 522
           ++++ V  +     E  L ++   +     ++ +                 AFV F   +
Sbjct: 2   VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGF------AFVTFDDHD 55

Query: 523 DASAALCCDGCSFSGSILKIKR 544
                +     + +G   ++++
Sbjct: 56  SVDKIVIQKYHTVNGHNCEVRK 77

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.1 bits (80), Expect = 0.004
 Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 3/77 (3%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAG 633
           KIF+GGI        + +    +G ++      +    +    AF+ + D     K +  
Sbjct: 4   KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI- 62

Query: 634 LNGLKVGGQVLTAVQAV 650
                V G      +A+
Sbjct: 63  QKYHTVNGHNCEVRKAL 79

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (102), Expect = 4e-06
 Identities = 14/80 (17%), Positives = 30/80 (37%), Gaps = 6/80 (7%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           ++ +  L    ++K L ++ + F        V      +  +  R +G  FV F  +E  
Sbjct: 1   KMFIGGLSWDTTKKDLKDYFSKF------GEVVDCTLKLDPITGRSRGFGFVLFKESESV 54

Query: 525 SAALCCDGCSFSGSILKIKR 544
              +       +G ++  KR
Sbjct: 55  DKVMDQKEHKLNGKVIDPKR 74

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 3/76 (3%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAG 633
           K+FIGG+S   + K + +    FG +     +++          F+ + +     K +  
Sbjct: 1   KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD- 59

Query: 634 LNGLKVGGQVLTAVQA 649
               K+ G+V+   +A
Sbjct: 60  QKEHKLNGKVIDPKRA 75

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 5e-06
 Identities = 12/75 (16%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKA 630
           S   + +  + + ++ +    +  + G +++     ++         F+ Y+D     KA
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60

Query: 631 IAGLNGLKVGGQVLT 645
           I  LNGL++  + + 
Sbjct: 61  INTLNGLRLQTKTIK 75

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.0 bits (101), Expect = 7e-06
 Identities = 11/69 (15%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 635
           ++F+G +   ++ + + ++   +G       EV    ++   FI    + +   A   L+
Sbjct: 10  RLFVGNLPPDITEEEMRKLFEKYGK----AGEVFIHKDKGFGFIRLETRTLAEIAKVELD 65

Query: 636 GLKVGGQVL 644
            + + G+ L
Sbjct: 66  NMPLRGKQL 74

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 13/82 (15%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
            RL V NLP   +E+ + +    +                   I ++KG  F+   T   
Sbjct: 9   SRLFVGNLPPDITEEEMRKLFEKY------------GKAGEVFIHKDKGFGFIRLETRTL 56

Query: 524 ASAAL-CCDGCSFSGSILKIKR 544
           A  A    D     G  L+++ 
Sbjct: 57  AEIAKVELDNMPLRGKQLRVRF 78

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

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]

 Score = 43.5 bits (102), Expect = 7e-06
 Identities = 17/90 (18%), Positives = 29/90 (32%), Gaps = 6/90 (6%)

Query: 455 QLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQA 514
            L+   R  R +    L      + L +F +          V           +R KG A
Sbjct: 10  NLSPEERDARTVFCMQLAARIRPRDLEDFFSAV------GKVRDVRIISDRNSRRSKGIA 63

Query: 515 FVEFLTAEDASAALCCDGCSFSGSILKIKR 544
           +VEF   +    A+   G    G  + ++ 
Sbjct: 64  YVEFCEIQSVPLAIGLTGQRLLGVPIIVQA 93

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.4 bits (99), Expect = 8e-06
 Identities = 10/80 (12%), Positives = 28/80 (35%), Gaps = 6/80 (7%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           ++ V  L ++ + + +  +   F        V  ++        R +G  FV F + +  
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQF------GKVDDAMLMFDKTTNRHRGFGFVTFESEDIV 54

Query: 525 SAALCCDGCSFSGSILKIKR 544
                      +  +++ K+
Sbjct: 55  EKVCEIHFHEINNKMVECKK 74

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.6 bits (89), Expect = 2e-04
 Identities = 11/72 (15%), Positives = 29/72 (40%), Gaps = 3/72 (4%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAG 633
           KIF+GG+S   + + V      FG +       ++         F+ +  + +  K    
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE- 59

Query: 634 LNGLKVGGQVLT 645
           ++  ++  +++ 
Sbjct: 60  IHFHEINNKMVE 71

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (101), Expect = 8e-06
 Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 6/88 (6%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
           RP   + + NL     +  L + L+              L  +     + +GQAFV F  
Sbjct: 1   RPNHTIYINNLNEKIKKDELKKSLHAIF-----SRFGQILDILVSRSLKMRGQAFVIFKE 55

Query: 521 AEDASAAL-CCDGCSFSGSILKIKRPKE 547
              A+ AL    G  F    ++I+  K 
Sbjct: 56  VSSATNALRSMQGFPFYDKPMRIQYAKT 83

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 8e-06
 Identities = 14/78 (17%), Positives = 38/78 (48%), Gaps = 3/78 (3%)

Query: 569 IVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLV 626
           ++K S   +++G +S   + + + E+    G +K     +++  +  C   F+EY  +  
Sbjct: 3   LLKKS-CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRAD 61

Query: 627 TPKAIAGLNGLKVGGQVL 644
              A+  +NG ++  +++
Sbjct: 62  AENAMRYINGTRLDDRII 79

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (93), Expect = 9e-05
 Identities = 15/83 (18%), Positives = 31/83 (37%), Gaps = 7/83 (8%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
           +    L V NL    +E+ + E  +          +   +  +  + +   G  FVE+ +
Sbjct: 5   KKSCTLYVGNLSFYTTEEQIYELFSKS------GDIKKIIMGLDKMKKTACGFCFVEYYS 58

Query: 521 AEDASAAL-CCDGCSFSGSILKI 542
             DA  A+   +G      I++ 
Sbjct: 59  RADAENAMRYINGTRLDDRIIRT 81

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (101), Expect = 8e-06
 Identities = 13/75 (17%), Positives = 29/75 (38%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA 630
           K +P ++ +  I        + ++   FG +       NE   +   F+ + +     +A
Sbjct: 8   KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 67

Query: 631 IAGLNGLKVGGQVLT 645
              L+G  V G+ + 
Sbjct: 68  REKLHGTVVEGRKIE 82

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 0.003
 Identities = 19/92 (20%), Positives = 30/92 (32%), Gaps = 9/92 (9%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFV 516
           ++S    +RL V N+P    +  L +           Q        I    +  KG  FV
Sbjct: 5   SESKSTPKRLHVSNIPFRFRDPDLRQMFG--------QFGKILDVEIIFNERGSKGFGFV 56

Query: 517 EFLTAEDASAAL-CCDGCSFSGSILKIKRPKE 547
            F  + DA  A     G    G  +++     
Sbjct: 57  TFENSADADRAREKLHGTVVEGRKIEVNNATA 88

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 2e-05
 Identities = 12/69 (17%), Positives = 29/69 (42%), Gaps = 1/69 (1%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 635
            ++I  +   ++++ + +I   +GP++        +     A++ Y D      A   L+
Sbjct: 9   ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR-GTAYVVYEDIFDAKNACDHLS 67

Query: 636 GLKVGGQVL 644
           G  V  + L
Sbjct: 68  GFNVCNRYL 76

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.3 bits (99), Expect = 3e-05
 Identities = 19/115 (16%), Positives = 38/115 (33%), Gaps = 13/115 (11%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           R L + NLP   + + + +    +                       +G A+V +    D
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKY---------GPIRQIRVGNTPETRGTAYVVYEDIFD 58

Query: 524 ASAAL-CCDGCSFSGSILKI---KRPKEFVEVASGEAEKSVASVDSVSGIVKDSP 574
           A  A     G +     L +      + F ++ + + E+ +  +    GI  D P
Sbjct: 59  AKNACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGINTDPP 113

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 2e-05
 Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 565 SVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ 624
            + G   ++  +I++G +   + +K + ++   +G ++      N     P AF+E+ D 
Sbjct: 5   VIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPPFAFVEFEDP 63

Query: 625 LVTPKAIAGLNGLKVGGQVLT 645
                A+ G +G    G  L 
Sbjct: 64  RDAEDAVYGRDGYDYDGYRLR 84

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.5 bits (97), Expect = 2e-05
 Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 6/80 (7%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           ++ V  L     E+ + E+   F        V      +     + +G  F+ F   E  
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGF------GEVESIELPMDNKTNKRRGFCFITFKEEEPV 54

Query: 525 SAALCCDGCSFSGSILKIKR 544
              +     +   S  +IK 
Sbjct: 55  KKIMEKKYHNVGLSKCEIKV 74

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.9 bits (80), Expect = 0.004
 Identities = 14/71 (19%), Positives = 28/71 (39%), Gaps = 3/71 (4%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAG 633
           KIF+GG+S     + + E    FG +++    ++    +     FI + ++    K +  
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME- 59

Query: 634 LNGLKVGGQVL 644
                VG    
Sbjct: 60  KKYHNVGLSKC 70

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 12/76 (15%), Positives = 32/76 (42%), Gaps = 2/76 (2%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPK 629
           D    + + G+S   + + + E+   +GP+       ++        AF+ + +     +
Sbjct: 7   DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 66

Query: 630 AIAGLNGLKVGGQVLT 645
           A    NG+++ G+ + 
Sbjct: 67  AKERANGMELDGRRIR 82

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 14/88 (15%), Positives = 30/88 (34%), Gaps = 9/88 (10%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           RL +  +P     + ++E +           +   +        + +G AFVE+ +   A
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKV----TEGVLDVIVYASAADKMKNRGFAFVEYESHRAA 58

Query: 525 SAA---LCCDGCSFSGSILKIK--RPKE 547
           + A   L        G  + +    P+ 
Sbjct: 59  AMARRKLMPGRIQLWGHQIAVDWAEPEI 86

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 9/71 (12%), Positives = 28/71 (39%), Gaps = 2/71 (2%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAG 633
            +++G +   ++  M+ E     GP+ +     +         A++ +       +A+  
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 634 LNGLKVGGQVL 644
           +N   + G+ +
Sbjct: 62  MNFDVIKGKPV 72

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 18/79 (22%), Positives = 28/79 (35%), Gaps = 7/79 (8%)

Query: 466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDAS 525
           L V +L    +E  L E  +          +     C   + +R  G A+V F    DA 
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPA------GPILSIRVCRDMITRRSLGYAYVNFQQPADAE 56

Query: 526 AALC-CDGCSFSGSILKIK 543
            AL   +     G  ++I 
Sbjct: 57  RALDTMNFDVIKGKPVRIM 75

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.8 bits (95), Expect = 4e-05
 Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 5/74 (6%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP-----CAFIEYVDQLVTPKAI 631
           +FI  ++ + + + +  +    G +K+      ++           F+EY       KA+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 632 AGLNGLKVGGQVLT 645
             L G  V G  L 
Sbjct: 61  KQLQGHTVDGHKLE 74

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.6 bits (92), Expect = 1e-04
 Identities = 17/80 (21%), Positives = 31/80 (38%), Gaps = 4/80 (5%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           ++NL  S +E+ L    +       ++    S       +    G  FVE+   E A  A
Sbjct: 3   IKNLNFSTTEETLKGVFSKV---GAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 59

Query: 528 L-CCDGCSFSGSILKIKRPK 546
           L    G +  G  L+++  +
Sbjct: 60  LKQLQGHTVDGHKLEVRISE 79

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 5e-05
 Identities = 12/88 (13%), Positives = 27/88 (30%), Gaps = 6/88 (6%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFV 516
           +Q +    ++ V  LP   ++ +L ++        G   +  ++        + +G  FV
Sbjct: 4   SQKDTTFTKIFVGGLPYHTTDASLRKY------FEGFGDIEEAVVITDRQTGKSRGYGFV 57

Query: 517 EFLTAEDASAALCCDGCSFSGSILKIKR 544
                  A  A         G    +  
Sbjct: 58  TMADRAAAERACKDPNPIIDGRKANVNL 85

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 5e-05
 Identities = 13/77 (16%), Positives = 36/77 (46%), Gaps = 2/77 (2%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTP 628
           ++    +++GG+   +S  ++ E+    GP+   H   +    +     F+E++ +    
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDAD 65

Query: 629 KAIAGLNGLKVGGQVLT 645
            AI  ++ +K+ G+ + 
Sbjct: 66  YAIKIMDMIKLYGKPIR 82

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 40.4 bits (94), Expect = 6e-05
 Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 2/75 (2%)

Query: 573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKA 630
           S   + +  + + ++ + +  +  A GP+       +         AF+++  ++ + +A
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 60

Query: 631 IAGLNGLKVGGQVLT 645
           I  LNG+ V  + L 
Sbjct: 61  IKVLNGITVRNKRLK 75

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 41.4 bits (96), Expect = 9e-05
 Identities = 14/76 (18%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPK 629
           D    + +  I  T+    + ++   +GP+++     + +  +     F+++       +
Sbjct: 40  DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99

Query: 630 AIAGLNGLKVGGQVLT 645
           AIAGLNG  +  + L 
Sbjct: 100 AIAGLNGFNILNKRLK 115

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 37.6 bits (86), Expect = 0.002
 Identities = 15/87 (17%), Positives = 30/87 (34%), Gaps = 7/87 (8%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
            +R L V  +P +  E  L +    +        +           ++ +G  FV+F + 
Sbjct: 41  VLRNLMVNYIPTTVDEVQLRQLFERY------GPIESVKIVCDRETRQSRGYGFVKFQSG 94

Query: 522 EDASAAL-CCDGCSFSGSILKIKRPKE 547
             A  A+   +G +     LK+     
Sbjct: 95  SSAQQAIAGLNGFNILNKRLKVALAAS 121

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (94), Expect = 9e-05
 Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 7/88 (7%)

Query: 460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFL 519
           +R +R + V N+P  A+E+ L +  +          V            + KG  F E+ 
Sbjct: 5   DRSLRSVFVGNIPYEATEEQLKDIFSEV------GPVVSFRLVYDRETGKPKGYGFCEYQ 58

Query: 520 TAEDASAAL-CCDGCSFSGSILKIKRPK 546
             E A +A+   +G  FSG  L++    
Sbjct: 59  DQETALSAMRNLNGREFSGRALRVDNAA 86

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (93), Expect = 1e-04
 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 4/83 (4%)

Query: 562 SVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEY 621
             + V          ++ GGI+  L+ +++ +    FG +     E+    E+  +F+ +
Sbjct: 6   RFEDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIM----EIRVFPEKGYSFVRF 61

Query: 622 VDQLVTPKAIAGLNGLKVGGQVL 644
                   AI  +NG  + G V+
Sbjct: 62  STHESAAHAIVSVNGTTIEGHVV 84

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 1e-04
 Identities = 17/88 (19%), Positives = 31/88 (35%), Gaps = 6/88 (6%)

Query: 460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFL 519
             P     + NLP   +E+++ EF                LP      +R KG  + EF 
Sbjct: 12  KSPPYTAFLGNLPYDVTEESIKEFFRGL------NISAVRLPREPSNPERLKGFGYAEFE 65

Query: 520 TAEDASAALCCDGCSFSGSILKIKRPKE 547
             +   +AL  +  S     +++    +
Sbjct: 66  DLDSLLSALSLNEESLGNKRIRVDVADQ 93

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 2/72 (2%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIA 632
             +F+  I        + E  C +G +K  H  ++         A +EY        A  
Sbjct: 8   WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 67

Query: 633 GLNGLKVGGQVL 644
            LNG ++ GQ +
Sbjct: 68  ALNGAEIMGQTI 79

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 13/72 (18%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAG 633
            +++GG++  +  K++      FG +      ++ + E+    AF+E+        AI  
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66

Query: 634 LNGLKVGGQVLT 645
           +N  ++ G+ + 
Sbjct: 67  MNESELFGRTIR 78

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 5e-04
 Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 12/90 (13%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           R L V  L     +K L      F        +      +    ++ +G AFVEF  AED
Sbjct: 6   RVLYVGGLAEEVDDKVLHAAFIPF------GDITDIQIPLDYETEKHRGFAFVEFELAED 59

Query: 524 ASAALC-CDGCSFSGSILKI-----KRPKE 547
           A+AA+   +     G  +++      R KE
Sbjct: 60  AAAAIDNMNESELFGRTIRVNLAKPMRIKE 89

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 2e-04
 Identities = 15/75 (20%), Positives = 35/75 (46%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA 630
           K     IFI  + +++ +K + +   AFG + +     +E+  +   F+ +  Q    +A
Sbjct: 5   KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERA 64

Query: 631 IAGLNGLKVGGQVLT 645
           I  +NG+ +  + + 
Sbjct: 65  IEKMNGMLLNDRKVF 79

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.5 bits (89), Expect = 3e-04
 Identities = 18/80 (22%), Positives = 41/80 (51%), Gaps = 2/80 (2%)

Query: 572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPK 629
               ++F+  +S T S + + ++  A+GPL   H+ ++   ++P   AF+ ++      K
Sbjct: 6   SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVK 65

Query: 630 AIAGLNGLKVGGQVLTAVQA 649
           A A ++G    G++L  + +
Sbjct: 66  AYAEVDGQVFQGRMLHVLPS 85

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (89), Expect = 3e-04
 Identities = 18/90 (20%), Positives = 26/90 (28%), Gaps = 7/90 (7%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           ++ +    L V  LP   +E+ L E+ + F     VQ                 G  FV 
Sbjct: 3   RAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSK------GFGFVR 56

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKE 547
           F   E     +        G     K P  
Sbjct: 57  FTEYETQVKVM-SQRHMIDGRWCDCKLPNS 85

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.8 bits (87), Expect = 4e-04
 Identities = 11/83 (13%), Positives = 23/83 (27%), Gaps = 4/83 (4%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           R + + NL     ++ L+                 ++P            AF+ F   + 
Sbjct: 5   REIMIRNLSTELLDENLLRESFE----GFGSIEKINIPAGQKEHSFNNCCAFMVFENKDS 60

Query: 524 ASAALCCDGCSFSGSILKIKRPK 546
           A  AL  +        + +    
Sbjct: 61  AERALQMNRSLLGNREISVSLAD 83

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.7 bits (87), Expect = 5e-04
 Identities = 11/76 (14%), Positives = 27/76 (35%), Gaps = 2/76 (2%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTP 628
           K  P  I +  +  T+S   +++    +  +         +   P   A + +  +    
Sbjct: 6   KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEAT 65

Query: 629 KAIAGLNGLKVGGQVL 644
            A+  LN   +G + +
Sbjct: 66  AAVIDLNDRPIGSRKV 81

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.5 bits (86), Expect = 5e-04
 Identities = 9/72 (12%), Positives = 26/72 (36%), Gaps = 2/72 (2%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAG 633
            +++     + + + + +++     +       +         A+I+   +      +  
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 62

Query: 634 LNGLKVGGQVLT 645
           LNGLK+ G  L 
Sbjct: 63  LNGLKIEGYTLV 74

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (87), Expect = 6e-04
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 7/85 (8%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
            +L V  L    +E++L +  + +        +   +       QR +G  FV F   +D
Sbjct: 6   GKLFVGGLSFDTNEQSLEQVFSKY------GQISEVVVVKDRETQRSRGFGFVTFENIDD 59

Query: 524 ASAALC-CDGCSFSGSILKIKRPKE 547
           A  A+   +G S  G  +++ +  +
Sbjct: 60  AKDAMMAMNGKSVDGRQIRVDQAGK 84

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (82), Expect = 0.003
 Identities = 12/74 (16%), Positives = 32/74 (43%), Gaps = 2/74 (2%)

Query: 574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAI 631
             K+F+GG+S   + + + ++   +G +       + + +      F+ + +      A+
Sbjct: 5   EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 64

Query: 632 AGLNGLKVGGQVLT 645
             +NG  V G+ + 
Sbjct: 65  MAMNGKSVDGRQIR 78

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.2 bits (86), Expect = 6e-04
 Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 6/83 (7%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL 634
             + + G  +  +S     I+  F             +      I Y  +L   KA++  
Sbjct: 5   TWVTVFGFPQASAS----YILLQFAQYGNILK-HVMSNTGNWMHIRYQSKLQARKALS-K 58

Query: 635 NGLKVGGQVLTAVQAVLDGSIMD 657
           +G   G  ++  V+  +D ++M+
Sbjct: 59  DGRIFGESIMIGVKPCIDKNVME 81

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 7e-04
 Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHF---EVNEDHEEPCAFIEYVDQLVTPKAIAG 633
           IFIG +   +  K++ +   AFG +        + +  + +  AFI +     +  AI  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 634 LNGLKVGGQVLT 645
           +NG  +  + +T
Sbjct: 61  MNGQYLCNRPIT 72

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 7e-04
 Identities = 9/70 (12%), Positives = 24/70 (34%), Gaps = 5/70 (7%)

Query: 576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 635
            I +  + +  + + V +++  +            D  +  AF+  ++      AI   +
Sbjct: 7   GILVKNLPQDSNCQEVHDLLKDYD-----LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFH 61

Query: 636 GLKVGGQVLT 645
                G+ L 
Sbjct: 62  QYSFRGKDLI 71

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 0.001
 Identities = 15/77 (19%), Positives = 30/77 (38%), Gaps = 2/77 (2%)

Query: 571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTP 628
            D    I +  +S       + E+   FG +   +   ++   +    AFI +  +    
Sbjct: 5   ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAA 64

Query: 629 KAIAGLNGLKVGGQVLT 645
           +AIAG++G      +L 
Sbjct: 65  RAIAGVSGFGYDHLILN 81

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 0.001
 Identities = 9/70 (12%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGL 634
           ++I G+    + + ++++   +G + +    +++     +   F+++       KA+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 635 NGLKVGGQVL 644
               V  Q+ 
Sbjct: 61  KASGVQAQMA 70

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 0.001
 Identities = 15/71 (21%), Positives = 36/71 (50%), Gaps = 5/71 (7%)

Query: 575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL 634
           +K++IG +S  +++  + ++        A         +   AF++Y DQ    +AI  L
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQV----LLKSGYAFVDYPDQNWAIRAIETL 57

Query: 635 NG-LKVGGQVL 644
           +G +++ G+++
Sbjct: 58  SGKVELHGKIM 68

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 0.002
 Identities = 15/83 (18%), Positives = 30/83 (36%), Gaps = 11/83 (13%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
           P+ R+ VENL    +   L +               G++  I    +  + QA +++   
Sbjct: 6   PVLRIIVENLFYPVTLDVLHQIF----------SKFGTVLKIITFTKNNQFQALLQYADP 55

Query: 522 EDASAAL-CCDGCSFSGSILKIK 543
             A  A    DG +   +   ++
Sbjct: 56  VSAQHAKLSLDGQNIYNACCTLR 78

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	967
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.91
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.83
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.63
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.6
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.58
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.57
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.56
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.56
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.55
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.54
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.54
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.54
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.52
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.52
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.52
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.52
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.51
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.51
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.51
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.51
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.51
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.5
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.5
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.5
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.5
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.49
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.49
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.49
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.49
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.48
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.48
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.48
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.48
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.48
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.48
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.48
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.48
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.48
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.47
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.47
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.47
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.47
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.47
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.47
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.47
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.47
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.46
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.46
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.46
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.46
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.46
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.46
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.46
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.46
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.45
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.45
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.45
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.45
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.45
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.45
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.45
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.45
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.44
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.44
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.44
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.44
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.44
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.44
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.44
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.43
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.43
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.43
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.43
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.43
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.43
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.43
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.43
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.42
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.42
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.42
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.42
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.42
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.42
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.42
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.41
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.41
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.41
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.41
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.41
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.41
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.41
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.41
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.41
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.4
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.39
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.39
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.39
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.39
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.39
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.38
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.38
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.38
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.38
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.38
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.38
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.37
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.37
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.37
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.37
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.37
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.37
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.37
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.37
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.37
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.36
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.36
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.36
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.36
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.35
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.35
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.35
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.34
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.34
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.33
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.33
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.33
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.33
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.33
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.33
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.33
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.32
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.32
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.32
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.31
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.31
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.31
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.3
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.3
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.3
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.3
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.3
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.3
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.29
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.29
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.29
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.29
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.29
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.29
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.28
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.28
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.27
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.26
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.25
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.25
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.25
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.23
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.23
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.23
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.21
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.19
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.18
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.17
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.16
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	99.13
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	99.11
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.05
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.05
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.04
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.98
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.98
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.9
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.89
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.94
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	95.56
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.1
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	94.89
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	94.89
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	93.41

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=1.8e-24  Score=218.82  Aligned_cols=168  Identities=17%  Similarity=0.277  Sum_probs=139.4

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .++|||||||+++|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+.+++..+.++.+.+
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~------~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~   79 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDC------VVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEP   79 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHcCCEEEE------EeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhh
Confidence            4799999999999999999999999964332      2345567889999999999999999999998888888888887


Q ss_pred             eCCCcccccccccccccccccCCcCCcccCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEe
Q 002093          543 KRPKEFVEVASGEAEKSVASVDSVSGIVKDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIE  620 (967)
Q Consensus       543 ~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVe  620 (967)
                      .+.......              ..........+|||+|||..+|+++|+++|+.||.|..+.|+.+..  .++|||||+
T Consensus        80 ~~~~~~~~~--------------~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~  145 (183)
T d1u1qa_          80 KRAVSREDS--------------QRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT  145 (183)
T ss_dssp             EECCCTTGG--------------GSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEE
T ss_pred             hhhhhcccc--------------cccccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEE
Confidence            743221111              0011233467999999999999999999999999999999998754  458999999


Q ss_pred             ecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          621 YVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       621 F~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      |.+.++|.+|+. ++|..|+|+.|.|.+|.+
T Consensus       146 f~~~e~A~~Al~-~~~~~~~G~~i~V~~A~~  175 (183)
T d1u1qa_         146 FDDHDSVDKIVI-QKYHTVNGHNCEVRKALS  175 (183)
T ss_dssp             ESCHHHHHHHHT-SSCEEETTEEEEEEECCC
T ss_pred             ECCHHHHHHHHH-hCCCeECCEEEEEEecCC
Confidence            999999999997 799999999999999865

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=2.7e-20  Score=187.73  Aligned_cols=166  Identities=13%  Similarity=0.160  Sum_probs=137.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+|+++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|+. +++..++++.+.+....+
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~~~~~~~~   84 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAVS   84 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHH-hcCCcccccchhhhhhhh
Confidence            36899999999999999999999999999999988754  458999999999999999997 667788889888877654


Q ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCC-CCC
Q 002093          652 DGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSN  730 (967)
Q Consensus       652 ~~~~~~~~~~~~~~~i~~~~~~~~~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~-~g~  730 (967)
                      .......               ....+.+.|+|.||...     +++       ++|+.+|..||.|..|.|+.+. +|.
T Consensus        85 ~~~~~~~---------------~~~~~~~~i~V~~lp~~-----~te-------~~L~~~f~~~G~v~~~~i~~~~~~~~  137 (183)
T d1u1qa_          85 REDSQRP---------------GAHLTVKKIFVGGIKED-----TEE-------HHLRDYFEQYGKIEVIEIMTDRGSGK  137 (183)
T ss_dssp             TTGGGST---------------TTTCCCSEEEEECCCTT-----CCH-------HHHHHHHGGGSCEEEEEEEECTTTCC
T ss_pred             ccccccc---------------ccccccceeEEccCCCc-----CCH-------HHHhhhhccCCceeeeeeecccccCc
Confidence            4332111               11234577999999642     233       5789999999999999999874 588


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          731 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       731 ~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      .+|||||+|.+.++|.+|++ |+|..|.|+.+.|..++
T Consensus       138 ~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A~  174 (183)
T d1u1qa_         138 KRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKAL  174 (183)
T ss_dssp             EEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEECC
T ss_pred             cceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEecC
Confidence            99999999999999999997 78899999999887754

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=6.4e-16  Score=141.61  Aligned_cols=91  Identities=31%  Similarity=0.330  Sum_probs=82.9

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCC---CcceeEEEEeCCHHHHHHHHHHh
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS---NISTIQACEGNENTASAGVGQNL  752 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g---~~~G~gFVeF~~~e~A~~Ai~~L  752 (967)
                      +.||+||+|.||+++.+|  .++.+|++|.+||+++|++||.|++|.|+++..+   ...|++||+|.+.++|.+|+..|
T Consensus         1 g~Ps~vl~l~N~~~~~~l--~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l   78 (104)
T d1o0pa_           1 GHPTEVLCLMNMVLPEEL--LDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGL   78 (104)
T ss_dssp             CCCCSEEEEESSCCTTTT--TSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHH
T ss_pred             CCCCcEEEEeCCCCHHHc--CCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHH
Confidence            368999999999999999  5999999999999999999999999999987544   34589999999999999999999


Q ss_pred             CCCccCCCcceeEEee
Q 002093          753 TNDETNEKGERLEEVT  768 (967)
Q Consensus       753 nG~~~~~r~~~v~~~~  768 (967)
                      ||+.|+||.+.+....
T Consensus        79 ~Gr~f~gR~v~v~f~~   94 (104)
T d1o0pa_          79 TGRKFANRVVVTKYCD   94 (104)
T ss_dssp             SSCCSSSSCCEEEEEC
T ss_pred             CCCEECCeEEEEEEcC
Confidence            9999999999987753

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.1e-16  Score=142.78  Aligned_cols=88  Identities=34%  Similarity=0.674  Sum_probs=79.3

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      +|+|||||||+.+|+++|+++|+.||.+..+..+.. ..+.+..++.++|||||+|.+.++|..|++|||..|.|+.|+|
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~-~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V   79 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPG-NPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKI   79 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSS-CSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCC
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhhCcEEEEEEecc-ceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEE
Confidence            479999999999999999999999998777655443 3678888999999999999999999999999999999999999


Q ss_pred             eCCCccccc
Q 002093          543 KRPKEFVEV  551 (967)
Q Consensus       543 ~rp~~~~~~  551 (967)
                      .+|++|.++
T Consensus        80 ~r~k~~~p~   88 (90)
T d1u2fa_          80 RRPHDYQPL   88 (90)
T ss_dssp             BCTTCCSCC
T ss_pred             CCCCCCCCc
Confidence            999998764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.58  E-value=2.1e-15  Score=131.85  Aligned_cols=78  Identities=17%  Similarity=0.325  Sum_probs=73.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..+.|++++.  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            46899999999999999999999999999999998754  4599999999999999999999999999999999999976

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=4.3e-15  Score=132.33  Aligned_cols=80  Identities=21%  Similarity=0.510  Sum_probs=75.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      .+++|||+|||..+|+++|+++|+.||.|..|.|+.+..+++|||||+|.+.++|..|+..|||..|.|+.|.|.+|.+.
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~   86 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP   86 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCC
Confidence            46799999999999999999999999999999999988778999999999999999999999999999999999999653

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=4.9e-15  Score=132.80  Aligned_cols=82  Identities=16%  Similarity=0.276  Sum_probs=77.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+++|||+|||..+++++|+++|++||.|..|.|+.+...++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.+
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~   88 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   88 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCc
Confidence            34678999999999999999999999999999999999888899999999999999999999999999999999999976


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        89 r~   90 (93)
T d2cq3a1          89 RV   90 (93)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=3.6e-15  Score=130.20  Aligned_cols=78  Identities=15%  Similarity=0.301  Sum_probs=72.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|..|+..|||..|+|+.|.|.+|.|
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            45799999999999999999999999999999998743  4589999999999999999999999999999999999976

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=3e-15  Score=133.09  Aligned_cols=79  Identities=18%  Similarity=0.343  Sum_probs=75.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..+|||+|||..+++++|+++|++||.|..+.|+.+.+.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.+.
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            4689999999999999999999999999999999998888999999999999999999999999999999999999754

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=4.8e-15  Score=130.59  Aligned_cols=79  Identities=42%  Similarity=0.707  Sum_probs=73.8

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ++|||+|||..+|+++|+++|++||.|..|.|+.|+  +.++|||||+|.++++|..|+..|||..|+|+.|.|.+|.+.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~   81 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            579999999999999999999999999999999875  456999999999999999999999999999999999999764


Q ss_pred             C
Q 002093          653 G  653 (967)
Q Consensus       653 ~  653 (967)
                      .
T Consensus        82 ~   82 (85)
T d2u2fa_          82 A   82 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=7.5e-15  Score=131.57  Aligned_cols=81  Identities=17%  Similarity=0.358  Sum_probs=75.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+|+++|+++|++||.|.+|.|+.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.+
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            57899999999999999999999999999999988754  4699999999999999999999999999999999999977


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        89 ~~~   91 (93)
T d1x5ua1          89 HNK   91 (93)
T ss_dssp             TSC
T ss_pred             CCC
Confidence            543

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=5.7e-15  Score=131.25  Aligned_cols=81  Identities=16%  Similarity=0.304  Sum_probs=74.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~   83 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   83 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            45789999999999999999999999999999998875  4569999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      |..
T Consensus        84 p~~   86 (89)
T d2cqba1          84 PMR   86 (89)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=8.8e-15  Score=127.33  Aligned_cols=75  Identities=12%  Similarity=0.238  Sum_probs=70.7

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .|||+|||+.+|+++|+++|++||.|..|+|+.++.  .++|||||+|.++++|..|++.|||..|.|++|+|.+|.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            599999999999999999999999999999998864  458999999999999999999999999999999999984

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=7.6e-15  Score=130.68  Aligned_cols=81  Identities=20%  Similarity=0.290  Sum_probs=74.9

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +...+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|+|+.|.|.+|
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~a   85 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   85 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEee
Confidence            3467899999999999999999999999999999998754  46899999999999999999999999999999999999


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .|.
T Consensus        86 kp~   88 (90)
T d2cq0a1          86 KPS   88 (90)
T ss_dssp             SCC
T ss_pred             eCC
Confidence            764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.52  E-value=2.1e-14  Score=130.08  Aligned_cols=82  Identities=21%  Similarity=0.424  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|..||+.|||..|.|+.|.|.++
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            346789999999999999999999999999999998875  456999999999999999999999999999999999999


Q ss_pred             ccCC
Q 002093          650 VLDG  653 (967)
Q Consensus       650 ~~~~  653 (967)
                      .+..
T Consensus        86 ~~~~   89 (99)
T d1whwa_          86 TIKK   89 (99)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            7654

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.52  E-value=1.5e-14  Score=128.21  Aligned_cols=80  Identities=20%  Similarity=0.375  Sum_probs=73.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..|+|+.+..  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.||.
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~   85 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF   85 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEec
Confidence            357899999999999999999999999999999998754  468999999999999999999999999999999999997


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      +.
T Consensus        86 ~k   87 (88)
T d1rk8a_          86 VK   87 (88)
T ss_dssp             EC
T ss_pred             CC
Confidence            64

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.51  E-value=1.8e-14  Score=128.54  Aligned_cols=78  Identities=21%  Similarity=0.299  Sum_probs=69.7

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ....+|||+|||+.+|+++|+++|+.||.+..+       .|++..++.++|||||+|.+.++|..||+|||..|.|++|
T Consensus        11 ~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~-------~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i   83 (91)
T d1fjeb1          11 TTPFNLFIGNLNPNKSVAELKVAISELFAKNDL-------AVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEI   83 (91)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC-------CCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEE
T ss_pred             CCCcEEEEeCccCcchHHHHHHHHhcCCcEEEe-------eeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEE
Confidence            445699999999999999999999999975553       3456678999999999999999999999999999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.++
T Consensus        84 ~V~~a   88 (91)
T d1fjeb1          84 KLEKP   88 (91)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99864

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.51  E-value=1.6e-14  Score=125.08  Aligned_cols=75  Identities=17%  Similarity=0.280  Sum_probs=70.5

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +|||+|||+.+++++|+++|++||.|..|.|..+. +.++|||||+|.+.++|..|++.|||..|+|++|.|.+|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            69999999999999999999999999999998874 4569999999999999999999999999999999999874

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=2.7e-14  Score=127.87  Aligned_cols=80  Identities=14%  Similarity=0.271  Sum_probs=73.9

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+|+++|+++|++||.|.+|.|+.+..  .++|||||+|.+.++|..|++.|||..|+|++|.|.++
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3568999999999999999999999999999999998854  35899999999999999999999999999999999998


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        85 ~~   86 (93)
T d1h2vz_          85 AG   86 (93)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.51  E-value=2.8e-14  Score=137.29  Aligned_cols=80  Identities=20%  Similarity=0.314  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||+ |||..|.|+.
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v------~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~  113 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESV------KIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKR  113 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEE------EEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhcccccc------ccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEE
Confidence            445789999999999999999999999964332      133556678899999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.++.
T Consensus       114 l~V~~a~  120 (139)
T d1u6fa1         114 LKVALAA  120 (139)
T ss_dssp             EEEEESS
T ss_pred             EEEEEcC
Confidence            9998643

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.51  E-value=1.7e-14  Score=129.44  Aligned_cols=81  Identities=19%  Similarity=0.287  Sum_probs=74.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHh-CCCccCCeEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~L-nG~~~~Gr~I~V~~  648 (967)
                      ...+|||+|||..+++++|+++|++||.|..|.|+.+.   +.++|||||+|.+.++|.+|++.| ||..|.|+.|.|.+
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~   86 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEW   86 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEE
Confidence            46789999999999999999999999999999998763   356999999999999999999998 89999999999999


Q ss_pred             cccCC
Q 002093          649 AVLDG  653 (967)
Q Consensus       649 a~~~~  653 (967)
                      |.++.
T Consensus        87 A~~~~   91 (94)
T d2cpha1          87 ADSEV   91 (94)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            97654

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=2.1e-14  Score=127.59  Aligned_cols=81  Identities=17%  Similarity=0.323  Sum_probs=74.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||+|.+.++|..|+..|||..|+|+.|.|.+|.
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~   83 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   83 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            35789999999999999999999999999999887764  4569999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        84 ~~~   86 (90)
T d1x5sa1          84 KSS   86 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.50  E-value=1.5e-14  Score=126.02  Aligned_cols=77  Identities=12%  Similarity=0.176  Sum_probs=68.2

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ++|||+|||..+|+++|+++|++||.|..+.++.+.  +.++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            589999999999999999999999999887776553  45699999999999999999999999999999999999966

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=1.8e-14  Score=126.72  Aligned_cols=75  Identities=19%  Similarity=0.321  Sum_probs=69.8

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC-----CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH-----EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~-----skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      |||+|||..+|+++|+++|++||.|..|.|+.+..+     ++|||||+|.+.++|.+|++.|||..|+|+.|.|.++.+
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            799999999999999999999999999999887543     379999999999999999999999999999999999854

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=8.1e-15  Score=128.84  Aligned_cols=78  Identities=19%  Similarity=0.342  Sum_probs=68.2

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+++|+++|.++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+||++++..|.|+.|+
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~------i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~   78 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCV------VMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVE   78 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhcccccee------ecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEE
Confidence            347999999999999999999999999744432      33566779999999999999999999999999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.++
T Consensus        79 V~~A   82 (84)
T d1l3ka1          79 PKRA   82 (84)
T ss_dssp             EEEC
T ss_pred             EEee
Confidence            9853

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=1e-14  Score=125.31  Aligned_cols=74  Identities=18%  Similarity=0.330  Sum_probs=65.4

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||+|||+++|+++|+++|++||.+..+.      .+.+..++.++|||||+|.++++|..||++++..|.|+.|.|.+
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~------i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCT------LKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccc------cccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeE
Confidence            599999999999999999999999744432      33566778999999999999999999999999999999999975

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=2.3e-14  Score=125.47  Aligned_cols=75  Identities=16%  Similarity=0.280  Sum_probs=69.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  646 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V  646 (967)
                      .+.++|||+|||..+|+++|+++|++||.|.+|.|+.+..  .++|||||+|.+.++|.+|+..|||..|+|+.|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            3457899999999999999999999999999999998754  45899999999999999999999999999999987

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.49  E-value=1.6e-14  Score=126.17  Aligned_cols=77  Identities=19%  Similarity=0.231  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      .++|||+|||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|+
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~------~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~   75 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTC------RIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK   75 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccee------eeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            3589999999999999999999999963332      234566778899999999999999999998 999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.++
T Consensus        76 v~~a   79 (82)
T d1b7fa1          76 VSYA   79 (82)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9853

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=3.6e-14  Score=131.75  Aligned_cols=79  Identities=15%  Similarity=0.316  Sum_probs=72.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|++||.|..|++..+ +.++|||||+|.+.++|..|+..|||..|.|+.|.|.++.+
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~-~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT-PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS-TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc-CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            44679999999999999999999999999999998765 34699999999999999999999999999999999999854

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.48  E-value=6.5e-14  Score=134.72  Aligned_cols=83  Identities=18%  Similarity=0.354  Sum_probs=75.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||..+|+++|+++|++||.|..|.|+.+..+  ++|||||+|.+.++|..||+.|||..|+|+.|.|.+|
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            34578999999999999999999999999999999988643  5899999999999999999999999999999999999


Q ss_pred             ccCCC
Q 002093          650 VLDGS  654 (967)
Q Consensus       650 ~~~~~  654 (967)
                      .+...
T Consensus       120 ~~~~~  124 (139)
T d1u6fa1         120 ASGHQ  124 (139)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            76543

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.3e-14  Score=125.72  Aligned_cols=76  Identities=12%  Similarity=0.229  Sum_probs=66.7

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .++|||||||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.++++|.+|+.+||..|.|++|.|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~------~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V   75 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIE------IMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV   75 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccc------cccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEE
Confidence            47999999999999999999999999644431      335556788999999999999999999999999999999999


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      .+
T Consensus        76 ~~   77 (79)
T d1l3ka2          76 RK   77 (79)
T ss_dssp             EE
T ss_pred             EE
Confidence            85

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=3.8e-14  Score=129.16  Aligned_cols=81  Identities=15%  Similarity=0.322  Sum_probs=74.1

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +..+|||+|||..+++++|+++|+.||.|..+.++.+..  .++|||||+|.+.++|..||+.|||..|+|+.|.|.++.
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~   96 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR   96 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            356899999999999999999999999999999988753  458999999999999999999999999999999999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        97 ~k~   99 (102)
T d2cpza1          97 SKN   99 (102)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            653

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=2.1e-14  Score=128.55  Aligned_cols=79  Identities=24%  Similarity=0.236  Sum_probs=68.8

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v------~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   81 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNT------HMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPI   81 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCcccc------ceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            45799999999999999999999999964433      134566789999999999999999999998 99999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      +|.++.
T Consensus        82 ~V~~A~   87 (93)
T d1x5ua1          82 RVNKAS   87 (93)
T ss_dssp             EEEETT
T ss_pred             EEEEcC
Confidence            998643

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=2e-14  Score=130.98  Aligned_cols=78  Identities=19%  Similarity=0.185  Sum_probs=68.2

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||+++|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~------~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i   90 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSA------KVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRL   90 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEE------EEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccccc------ceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEE
Confidence            34689999999999999999999999964433      234666788999999999999999999998 99999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.++
T Consensus        91 ~V~~a   95 (102)
T d2cpza1          91 KVQLK   95 (102)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            99854

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=3e-14  Score=125.34  Aligned_cols=76  Identities=22%  Similarity=0.447  Sum_probs=69.6

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCC--eEEEEEEc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a  649 (967)
                      ..+|||+|||..+|+++|+++|++||.|.++.|+.++.  .++|||||+|.+.++|..|++.|||..+.|  ++|.|.+|
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            46799999999999999999999999999999998753  468999999999999999999999999987  55888876

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.8e-14  Score=128.00  Aligned_cols=79  Identities=27%  Similarity=0.321  Sum_probs=69.2

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~------i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~   76 (89)
T d2cqba1           3 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQ------IPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRT   76 (89)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEE------CCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecc------cccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            3457999999999999999999999999755432      33566789999999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.++
T Consensus        77 l~v~~a   82 (89)
T d2cqba1          77 IRVNLA   82 (89)
T ss_dssp             EEEEEC
T ss_pred             EEEEEe
Confidence            999853

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.4e-14  Score=125.94  Aligned_cols=75  Identities=24%  Similarity=0.269  Sum_probs=66.0

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      .|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.++++|..||+ |||..|.|++|+|.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~------i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~   75 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIR------VCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIM   75 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEE------EEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            699999999999999999999999644332      33556778999999999999999999998 99999999999998


Q ss_pred             CC
Q 002093          544 RP  545 (967)
Q Consensus       544 rp  545 (967)
                      +.
T Consensus        76 ~a   77 (80)
T d1cvja1          76 WS   77 (80)
T ss_dssp             EC
T ss_pred             Ee
Confidence            53

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.6e-14  Score=126.55  Aligned_cols=75  Identities=27%  Similarity=0.341  Sum_probs=65.3

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v------~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i   81 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIADV------SIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI   81 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEE------EEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCccc------cccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEe
Confidence            45689999999999999999999999964332      133555678899999999999999999998 99999999999


Q ss_pred             EE
Q 002093          541 KI  542 (967)
Q Consensus       541 ~V  542 (967)
                      +|
T Consensus        82 ~V   83 (83)
T d2cqca1          82 RV   83 (83)
T ss_dssp             EE
T ss_pred             EC
Confidence            87

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

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=99.47  E-value=7.8e-15  Score=133.54  Aligned_cols=77  Identities=19%  Similarity=0.239  Sum_probs=67.9

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..+|.++|||||+|.+.++|.+|+.|||..|.|++|.
T Consensus        17 ~~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~------i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~   90 (101)
T d2cq4a1          17 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVR------IISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPII   90 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEE------ECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHcCCCeEEEEE------eeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEE
Confidence            357999999999999999999999999744432      33566789999999999999999999999999999999999


Q ss_pred             EeC
Q 002093          542 IKR  544 (967)
Q Consensus       542 V~r  544 (967)
                      |..
T Consensus        91 V~~   93 (101)
T d2cq4a1          91 VQA   93 (101)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            984

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=2.1e-14  Score=127.62  Aligned_cols=78  Identities=24%  Similarity=0.365  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+++|+++|+++|++||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~------~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~   76 (90)
T d1x5sa1           3 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVV------VVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQ   76 (90)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEE------ECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHhhhcccccccee------eccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            4567899999999999999999999999744432      23455678899999999999999999998 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|.+
T Consensus        77 l~V~~   81 (90)
T d1x5sa1          77 IRVDQ   81 (90)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99985

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=1.9e-14  Score=123.35  Aligned_cols=74  Identities=12%  Similarity=0.219  Sum_probs=65.4

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|.+||++||..|.|++|.|++
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~------~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~   74 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAM------LMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEEC------CBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceee------eeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEE
Confidence            599999999999999999999999644431      33556678899999999999999999999999999999999985

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=2.3e-14  Score=128.33  Aligned_cols=78  Identities=19%  Similarity=0.275  Sum_probs=68.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ..+++|||+|||+++|+++|+++|++||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~------i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~   78 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKII------MGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRI   78 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceec------cccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            5678999999999999999999999999644332      33555678899999999999999999999 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|.+
T Consensus        79 i~V~~   83 (93)
T d1h2vz_          79 IRTDW   83 (93)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            99985

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=4e-14  Score=124.35  Aligned_cols=77  Identities=22%  Similarity=0.319  Sum_probs=70.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ..++|||+|||..+|+++|+++|++||.|..|.|+.|..  .++|||||+|.+.++|.+|++ ++|..|.|+.|.|..|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEeee
Confidence            357899999999999999999999999999999998854  469999999999999999997 79999999999998874

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=1.6e-14  Score=127.22  Aligned_cols=80  Identities=19%  Similarity=0.226  Sum_probs=68.7

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ..++|||+|||+++|+++|+++|+.||.+..+       .+....++.++|||||+|.++++|.+||+++|..|.|++|.
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v-------~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~   77 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNI-------QMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL   77 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTSCCEEEE-------EEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECE
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHhcccccc-------eeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEE
Confidence            35799999999999999999999999964432       23334568889999999999999999999999999999999


Q ss_pred             EeCCCcc
Q 002093          542 IKRPKEF  548 (967)
Q Consensus       542 V~rp~~~  548 (967)
                      |.+..+|
T Consensus        78 v~~~~dy   84 (85)
T d1zh5a2          78 ILFKDDY   84 (85)
T ss_dssp             EEEGGGC
T ss_pred             EEEcCCC
Confidence            9976555

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=8.8e-15  Score=126.44  Aligned_cols=75  Identities=15%  Similarity=0.255  Sum_probs=66.8

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEe
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIK  543 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~  543 (967)
                      ++|||+|||+++|+++|+++|++||.+..+.      .+.+..++.++|||||+|.+.++|.+||++|+..|.|+.|.|.
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~------i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~   74 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECL------VMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPK   74 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEE------EECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceee------eecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEE
Confidence            5899999999999999999999999754432      3356778999999999999999999999999999999999997


Q ss_pred             C
Q 002093          544 R  544 (967)
Q Consensus       544 r  544 (967)
                      .
T Consensus        75 ~   75 (77)
T d1uawa_          75 V   75 (77)
T ss_dssp             E
T ss_pred             E
Confidence            4

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=5.7e-14  Score=126.53  Aligned_cols=76  Identities=17%  Similarity=0.363  Sum_probs=71.4

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      .++|||+|||..+++++|+++|++||.|.+|.|+.+    +|||||+|.+.++|.+|+..|||..|+|+.|+|.|+.+.+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~p   93 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESP   93 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            568999999999999999999999999999999875    8999999999999999999999999999999999986543

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=2.6e-14  Score=123.39  Aligned_cols=74  Identities=22%  Similarity=0.321  Sum_probs=69.1

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ++|||+|||..+|+++|+++|++||.|..+.|+.|+.  .++|||||+|.+.++|.+|++ ++++.|+|+.|.|..|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            4799999999999999999999999999999998864  469999999999999999997 7999999999999876

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

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=99.46  E-value=4.8e-14  Score=128.21  Aligned_cols=78  Identities=14%  Similarity=0.303  Sum_probs=72.0

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|+.||.|..|.|+++.  +.++|||||+|.+.++|.+|++ |||..|+|+.|.|.++.+
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECCC
Confidence            3689999999999999999999999999999999885  4579999999999999999995 999999999999999865


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        97 ~   97 (101)
T d2cq4a1          97 E   97 (101)
T ss_dssp             H
T ss_pred             C
Confidence            3

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=1.3e-14  Score=127.77  Aligned_cols=76  Identities=20%  Similarity=0.318  Sum_probs=67.3

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||+++|+++|+++|+.||++..+.      .+.+..+|.++|||||+|.++++|..|+. |||..|.|++|.|
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~------i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V   75 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFN------LVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV   75 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEE------EECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEE------eeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            5899999999999999999999999744332      33566789999999999999999999999 9999999999999


Q ss_pred             eCC
Q 002093          543 KRP  545 (967)
Q Consensus       543 ~rp  545 (967)
                      .++
T Consensus        76 ~~A   78 (85)
T d2u2fa_          76 QRA   78 (85)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            864

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.46  E-value=2.7e-14  Score=126.57  Aligned_cols=79  Identities=20%  Similarity=0.176  Sum_probs=68.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~------i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~   78 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIH------LNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT   78 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccccc------ccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEE
Confidence            4567999999999999999999999999644331      33556778999999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.++
T Consensus        79 l~V~~a   84 (88)
T d1rk8a_          79 IQVDWC   84 (88)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            999853

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.46  E-value=4.8e-14  Score=123.98  Aligned_cols=77  Identities=19%  Similarity=0.324  Sum_probs=70.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCC--eEEEEEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQ  648 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~  648 (967)
                      ..++|||+|||..+++++|+++|++||.|..++|++++.  .++|||||+|.+.++|..|++.|||..+.|  ++|.|.+
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            356799999999999999999999999999999998753  458999999999999999999999998866  8899988


Q ss_pred             c
Q 002093          649 A  649 (967)
Q Consensus       649 a  649 (967)
                      |
T Consensus        85 A   85 (85)
T d1b7fa2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            6

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=3.4e-14  Score=121.99  Aligned_cols=73  Identities=21%  Similarity=0.383  Sum_probs=67.5

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +|||+|||..+|+++|+++|++||.|..+.|+.++.  .++|||||+|.+.++|.+||+ +++..|+|+.|.|.+|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeEC
Confidence            589999999999999999999999999999998854  468999999999999999997 8999999999999764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=1.1e-13  Score=126.26  Aligned_cols=80  Identities=18%  Similarity=0.275  Sum_probs=72.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      .++|||+|||..+++++|+++|++||.|.+|.|+.+..  .++|||||+|.+.++|.+|++.+|+ .|+|+.|.|.++.+
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   88 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcCC
Confidence            46799999999999999999999999999999998854  5799999999999999999998886 79999999999876


Q ss_pred             CCC
Q 002093          652 DGS  654 (967)
Q Consensus       652 ~~~  654 (967)
                      ...
T Consensus        89 ~~~   91 (103)
T d2cqda1          89 GAK   91 (103)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            543

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=4.1e-14  Score=123.81  Aligned_cols=77  Identities=23%  Similarity=0.381  Sum_probs=69.5

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      |||+|||..+|+++|+++|++||.|.. +.|+++..  .++|||||+|.+.++|..|+..|||..|+|++|.|.+|.+..
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k~   80 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKD   80 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCCC
Confidence            799999999999999999999999866 46777643  468999999999999999999999999999999999997643

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=4.1e-14  Score=122.44  Aligned_cols=73  Identities=25%  Similarity=0.276  Sum_probs=63.7

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEe
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~  543 (967)
                      +|||+|||+++|+++|+++|++||.+..+.       +....++.++|||||+|.+.++|..|++ |||..|.|++|+|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~-------i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~   74 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAA-------VHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQ   74 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEE-------ESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEE-------EEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            799999999999999999999999644331       2223478899999999999999999999 99999999999998


Q ss_pred             C
Q 002093          544 R  544 (967)
Q Consensus       544 r  544 (967)
                      .
T Consensus        75 ~   75 (78)
T d1no8a_          75 L   75 (78)
T ss_dssp             E
T ss_pred             E
Confidence            4

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=9.5e-14  Score=125.03  Aligned_cols=73  Identities=19%  Similarity=0.289  Sum_probs=66.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. |||..|.|++
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG------------~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~   83 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFG------------QIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHV   83 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhC------------CceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            4457999999999999999999999999            45666666789999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.+.
T Consensus        84 l~v~~a   89 (96)
T d1x4ga1          84 VKCYWG   89 (96)
T ss_dssp             CEEECC
T ss_pred             EEEEEc
Confidence            999864

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=6.8e-14  Score=123.39  Aligned_cols=76  Identities=13%  Similarity=0.278  Sum_probs=71.2

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      .++|||+|||..+++++|+++|++||.|..|.+.++    +|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~~   83 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA   83 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCcC
Confidence            568999999999999999999999999999999765    8999999999999999999999999999999999996643

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=4.9e-14  Score=127.62  Aligned_cols=80  Identities=30%  Similarity=0.423  Sum_probs=68.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||+ |||..|.|++
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~------i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~   79 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELH------YPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEE------CCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeee------ecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            3466899999999999999999999999644321      33566778999999999999999999998 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+..
T Consensus        80 i~V~~a~   86 (99)
T d1whwa_          80 LHVLPST   86 (99)
T ss_dssp             EEEEECC
T ss_pred             EEEEECC
Confidence            9998543

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1.2e-13  Score=124.02  Aligned_cols=80  Identities=18%  Similarity=0.383  Sum_probs=72.4

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+|||..+++++|+++|+.||.|..+.+..+ ..++|||||+|.+.++|..|++.|||..|.|+.|.|.+|.+
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~-~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc-ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            44678999999999999999999999999999887554 44689999999999999999999999999999999999865


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        91 ~   91 (95)
T d1x4aa1          91 G   91 (95)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.45  E-value=5.6e-14  Score=122.30  Aligned_cols=75  Identities=17%  Similarity=0.232  Sum_probs=60.6

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||+++|+++|+++|+.||.+..+.      .+.+...+.++|||||+|.+.++|..|+. |||..|.|++|.|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~------~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V   75 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSI------RLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVT   75 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEE------ECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeee------eecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            6999999999999999999999999643321      23455678899999999999999999999 9999999999999


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      ..
T Consensus        76 ~~   77 (81)
T d2ghpa1          76 KV   77 (81)
T ss_dssp             EE
T ss_pred             EE
Confidence            84

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=5.5e-14  Score=122.94  Aligned_cols=75  Identities=19%  Similarity=0.231  Sum_probs=65.0

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEeC
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKR  544 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~r  544 (967)
                      |||+|||+++|+++|+++|++||.+..+..     .+.+..++.++|||||+|.+.++|..||. |||..|.|++|+|.+
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~-----i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~   75 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPK-----IMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   75 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCE-----ECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEE-----EEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEE
Confidence            899999999999999999999996433211     23456678999999999999999999998 999999999999985


Q ss_pred             C
Q 002093          545 P  545 (967)
Q Consensus       545 p  545 (967)
                      +
T Consensus        76 a   76 (83)
T d1x5ta1          76 A   76 (83)
T ss_dssp             S
T ss_pred             e
Confidence            3

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1.5e-13  Score=122.20  Aligned_cols=78  Identities=23%  Similarity=0.318  Sum_probs=64.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ..+.++|||+|||+++|+++|+++|+.||.+..+..      +.+  ....+|||||+|.+.++|..|+. |||..|.|+
T Consensus         5 ~~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i------~~d--~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~   76 (90)
T d2cqia1           5 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKM------ITE--HTSNDPYCFVEFYEHRDAAAALAAMNGRKILGK   76 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEE------ECC--CCSSCCEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeee------ecc--cCccceeeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            456789999999999999999999999996433211      112  23358999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|+|.++
T Consensus        77 ~i~v~~a   83 (90)
T d2cqia1          77 EVKVNWA   83 (90)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEEc
Confidence            9999854

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=5.3e-14  Score=128.50  Aligned_cols=80  Identities=23%  Similarity=0.433  Sum_probs=73.5

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+++++|+++|++||.|..|.|+.+..  .++|||||+|.+.++|.+|++.|||..|.|+.|.|.++.+
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~   87 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            35799999999999999999999999999999998754  3589999999999999999999999999999999999865


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        88 ~~   89 (104)
T d1p1ta_          88 EK   89 (104)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=4.2e-14  Score=123.33  Aligned_cols=75  Identities=16%  Similarity=0.286  Sum_probs=65.3

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      .+|||+|||+++|+++|+++|++||.+..+.      .+.+...+.++|||||+|.+.++|..|+. |||..|.|++|+|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~------i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v   76 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCK------LVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKV   76 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCccccc------ceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            4799999999999999999999999643321      23455668899999999999999999998 9999999999999


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      .+
T Consensus        77 ~~   78 (82)
T d1fxla1          77 SY   78 (82)
T ss_dssp             EE
T ss_pred             EE
Confidence            85

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=9.9e-14  Score=123.39  Aligned_cols=79  Identities=10%  Similarity=0.190  Sum_probs=71.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||..+|+++|+++|++||.|..|.|+.|.  +.++|||||+|.+.++|.+||+.  +..|+|+.|.|.+|.
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~--~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKLPN   84 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEECCC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc--CCccCCEEeEEEeCC
Confidence            46789999999999999999999999999999999985  45699999999999999999985  458999999999987


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        85 ~k~   87 (90)
T d2cqga1          85 SKQ   87 (90)
T ss_dssp             TTC
T ss_pred             CCC
Confidence            643

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=3.5e-14  Score=129.59  Aligned_cols=77  Identities=21%  Similarity=0.368  Sum_probs=67.2

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V  542 (967)
                      .++|||+|||+++|+++|+++|.+||.+..+.      ++.+..++.++|||||+|.+.++|..||.++|..|.|+.|.|
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~------i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V   93 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCV------VMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEP   93 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEE------EECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCccccee------ecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEE
Confidence            36899999999999999999999999744431      234556788999999999999999999999999999999999


Q ss_pred             eCC
Q 002093          543 KRP  545 (967)
Q Consensus       543 ~rp  545 (967)
                      .++
T Consensus        94 ~~a   96 (103)
T d1x4ba1          94 KRA   96 (103)
T ss_dssp             ECC
T ss_pred             EEC
Confidence            864

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.44  E-value=5.4e-14  Score=120.42  Aligned_cols=73  Identities=16%  Similarity=0.322  Sum_probs=67.7

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +|||+|||..+|+++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|++ |||..|+|+.|.|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEEC
Confidence            589999999999999999999999999998887754  469999999999999999997 9999999999999876

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=9.7e-14  Score=120.13  Aligned_cols=75  Identities=19%  Similarity=0.310  Sum_probs=69.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCC--CCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDH--EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~--skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|||+|||+.+|+++|+++|++||.|..+.+..++.+  ++|||||+|.+.++|.+|+. |+|..|+|+.|.|..|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            368999999999999999999999999999999887544  58999999999999999995 8999999999999887

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=4.9e-14  Score=122.55  Aligned_cols=75  Identities=21%  Similarity=0.313  Sum_probs=68.6

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCC-ccCCeEEEEEEcccCC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL-KVGGQVLTAVQAVLDG  653 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~-~~~Gr~I~V~~a~~~~  653 (967)
                      ++|||+|||..+|+++|+++|++||.|..+.+...    +|||||+|.+.++|.+|++.|||. .|.|+.|.|.+|.|..
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~----rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~   77 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK----SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   77 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEE----TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecc----cceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcC
Confidence            57999999999999999999999999987776653    899999999999999999999996 6999999999998754

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=9.7e-14  Score=125.84  Aligned_cols=87  Identities=22%  Similarity=0.230  Sum_probs=69.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccC--CcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG--SLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~--~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      ....+|||+|||+.+|+++|+++|..||.+..+.....  .....+..++.++|||||+|.+.++|..||+ |||..|.|
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   85 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   85 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECC
Confidence            45679999999999999999999999997543322211  1122334557889999999999999999999 99999999


Q ss_pred             ceeEEeCCCc
Q 002093          538 SILKIKRPKE  547 (967)
Q Consensus       538 r~l~V~rp~~  547 (967)
                      ++|+|.++..
T Consensus        86 r~i~V~~a~~   95 (101)
T d2cpea1          86 SKLKVSLARK   95 (101)
T ss_dssp             EECEEECSSC
T ss_pred             EEEEEEEcCC
Confidence            9999997544

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=5e-14  Score=122.47  Aligned_cols=70  Identities=20%  Similarity=0.320  Sum_probs=61.4

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCc-eeecceeE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC-SFSGSILK  541 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~-~l~Gr~l~  541 (967)
                      ++|||+|||+++|+++|+++|.+||.            +....+..++|||||+|.+.++|..|++ |||. .|.|++|+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~------------i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~   69 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKL------------PLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIME   69 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTC------------CCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCc------------EEEeEEecccceEEEEECCHHHHHHHHHHhCCCeEECCEEEE
Confidence            47999999999999999999999994            2344455679999999999999999999 9994 69999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.++
T Consensus        70 V~~a   73 (80)
T d2cqha1          70 VDYS   73 (80)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9853

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.43  E-value=9.8e-14  Score=119.10  Aligned_cols=74  Identities=14%  Similarity=0.135  Sum_probs=69.8

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ++|||+|||..+++++|+++|+.||.|..|.+..+.+..+|||||+|.+.++|.+|+. |||..|+|+.|.|..+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            4799999999999999999999999999999999988788999999999999999995 8999999999999875

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.1e-13  Score=128.39  Aligned_cols=74  Identities=18%  Similarity=0.217  Sum_probs=64.4

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      .+++|||+|||+.+|+++|.++|+.||.+..+         .-...+.++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i---------~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l   76 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQI---------RVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYL   76 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEE---------EEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEee---------cccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            46799999999999999999999999963332         222356789999999999999999998 99999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus        77 ~V~~   80 (114)
T d2f9da1          77 VVLY   80 (114)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9984

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.1e-13  Score=126.29  Aligned_cols=79  Identities=19%  Similarity=0.276  Sum_probs=72.3

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..+|||+|||..+++++|+++|++||.|..+.|+.+..  .++|||||+|.+.++|.+|++ ++|..|+|+.|.|.+|.+
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a~~   98 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRAVA   98 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEECcc
Confidence            36899999999999999999999999999999998854  469999999999999999996 899999999999999876


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        99 ke  100 (103)
T d1x4ba1          99 RE  100 (103)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=1.3e-13  Score=125.22  Aligned_cols=79  Identities=30%  Similarity=0.415  Sum_probs=69.7

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      +.++|||+|||+.+|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|++|
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~------~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l   90 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP------IQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKIL   90 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC------CEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEE------eecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEE
Confidence            467999999999999999999999999755532      34566789999999999999999999998 99999999999


Q ss_pred             EEeCCC
Q 002093          541 KIKRPK  546 (967)
Q Consensus       541 ~V~rp~  546 (967)
                      +|.+++
T Consensus        91 ~V~~ak   96 (102)
T d2cpxa1          91 VIEFGK   96 (102)
T ss_dssp             EEEECC
T ss_pred             EEEeCC
Confidence            998643

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.43  E-value=5.8e-14  Score=123.78  Aligned_cols=78  Identities=18%  Similarity=0.342  Sum_probs=68.8

Q ss_pred             CceEEEcCCCcccC-HHHHHHHHHhcCCeeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGISRTLS-SKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~t-eedL~e~Fsk~G~V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|||+|||..++ +++|+++|++||.|..|.|+.+.   +.++|||||+|.+.++|.+|++ |||..|+|+.|.|.+|
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a   82 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLA   82 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEEC
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEc
Confidence            57999999999876 55699999999999999987642   3569999999999999999995 9999999999999998


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .+.
T Consensus        83 ~~k   85 (86)
T d2ghpa3          83 DKK   85 (86)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            653

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=4.2e-14  Score=125.80  Aligned_cols=79  Identities=25%  Similarity=0.323  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      ....+|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||+ |||..|.|+.
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~------i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~   79 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIY------LAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLI   79 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEE------EEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccccc------ccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEE
Confidence            3457899999999999999999999999644321      23455678899999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.++
T Consensus        80 i~v~~a   85 (90)
T d2cq0a1          80 LNVEWA   85 (90)
T ss_dssp             CEEEES
T ss_pred             EEEEee
Confidence            999854

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=1.1e-13  Score=126.31  Aligned_cols=79  Identities=14%  Similarity=0.213  Sum_probs=66.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      +...++|||+|||+.+|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||+ +|+ .|.|+
T Consensus         7 d~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~------i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr   79 (103)
T d2cqda1           7 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAV------VITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGR   79 (103)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEE------ESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTE
T ss_pred             CCCCcEEEEeCCCCcCcHHHHHHHHhhccccccee------ccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCE
Confidence            34457899999999999999999999999644432      33556778999999999999999999999 776 79999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|.|.++
T Consensus        80 ~l~V~~a   86 (103)
T d2cqda1          80 KANVNLA   86 (103)
T ss_dssp             ECEEEES
T ss_pred             EEEEEEc
Confidence            9999853

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=9.7e-14  Score=124.47  Aligned_cols=79  Identities=22%  Similarity=0.344  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeee-eeecCCCcEEEEEEcCHHHHHHHHH-c-cCceeec
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIG-CVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSG  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~-~~~~~skG~aFVeF~~~e~A~~Al~-l-ng~~l~G  537 (967)
                      ...++|||+|||+.+|+++|+++|..||.+..+.      .+.+ ..+|.++|||||+|.+.++|..||. | ||..|.|
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~------i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~G   79 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVR------LPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYG   79 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEE------EEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECC
Confidence            4567899999999999999999999999644432      1223 2468899999999999999999999 7 8999999


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      ++|.|.++
T Consensus        80 r~l~V~~A   87 (94)
T d2cpha1          80 RRLVLEWA   87 (94)
T ss_dssp             CBCEEEEC
T ss_pred             EEEEEEEc
Confidence            99999864

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=1.7e-13  Score=120.61  Aligned_cols=72  Identities=29%  Similarity=0.347  Sum_probs=63.9

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|||+|||+++|+++|+++|+.||.            +..+.++.++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         7 ~~k~l~V~nLp~~~te~~l~~~F~~~g~------------i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i   74 (86)
T d2cpda1           7 SVKILYVRNLMLSTSEEMIEKEFNNIKP------------GAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPI   74 (86)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTST------------TCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHhhcccce------------eeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEE
Confidence            4579999999999999999999999983            2334556789999999999999999999 99999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|.++
T Consensus        75 ~V~~a   79 (86)
T d2cpda1          75 EVTLA   79 (86)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99853

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.42  E-value=1.4e-13  Score=120.43  Aligned_cols=75  Identities=19%  Similarity=0.314  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc-CCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-GGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~-~Gr~I~V~~a~  650 (967)
                      +.++|||+|||..+++++|.++|+.||.|..|+++.+   .+|||||+|.+.++|..|+..|||..| +|+.|.|.||.
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN---RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT---TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc---cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            4579999999999999999999999999999999765   579999999999999999999999888 57899999984

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=5.1e-14  Score=128.64  Aligned_cols=78  Identities=24%  Similarity=0.398  Sum_probs=67.8

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeeccee
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l  540 (967)
                      ..++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..|++ |||..|.|++|
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~------i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i   80 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFR------LVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL   80 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEE------EEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCB
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccccc------cccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            457899999999999999999999999744432      33555678899999999999999999998 99999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.++
T Consensus        81 ~V~~a   85 (104)
T d1p1ta_          81 RVDNA   85 (104)
T ss_dssp             EEEET
T ss_pred             EEEEC
Confidence            99853

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=7.7e-14  Score=119.78  Aligned_cols=73  Identities=21%  Similarity=0.341  Sum_probs=67.1

Q ss_pred             eEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          576 KIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       576 ~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +|||+|||..+|+++|+++|++||.|..|.|+.++  +.++|||||+|.+.++|.+||+ ++++.++|+.|.|+.|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEEEC
Confidence            59999999999999999999999999999999885  4569999999999999999996 6888999999998765

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=2.9e-13  Score=119.13  Aligned_cols=76  Identities=14%  Similarity=0.191  Sum_probs=70.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      ..+|||+|||..+++++|+++|++||.|..+.+..    ++|||||+|.+.++|..|+..|||..|+|+.|.|.+|.|..
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~----~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~   83 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK----IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   83 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE----CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc----ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCC
Confidence            47899999999999999999999999998887754    58999999999999999999999999999999999997643

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1.3e-13  Score=119.51  Aligned_cols=75  Identities=20%  Similarity=0.354  Sum_probs=69.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...++|||+||+  +|+++|+++|++||.|..|.+.++    +|||||+|.+.++|..|+..|||..|+|+.|+|.++.+
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   76 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP----RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   76 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT----TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCS
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC----CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            456899999996  899999999999999999998764    78999999999999999999999999999999999965


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        77 ~   77 (79)
T d2bz2a1          77 Q   77 (79)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=6.3e-14  Score=120.35  Aligned_cols=74  Identities=16%  Similarity=0.216  Sum_probs=64.6

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||||||+++|+++|+++|++||.+..+.      .+.+..++.++|||||+|.+.++|.+||++++..|.|+.|.|+.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~------i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~   74 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIE------LPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEE------CCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEEC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCccccc------ccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEE
Confidence            699999999999999999999999644331      33566789999999999999999999999888899999999873

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1.3e-13  Score=122.57  Aligned_cols=78  Identities=23%  Similarity=0.247  Sum_probs=66.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+++|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.++++|.+||+ ++..|.|+.|
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v------~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~~~l~Gr~i   78 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMV------QVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWC   78 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEE------EEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEE
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhccccee------eeccCCCCcccCCEEEEEECCHHHHHHHHh-cCCccCCEEe
Confidence            456789999999999999999999999974443      234666789999999999999999999999 2337899999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      .|.++
T Consensus        79 ~v~~a   83 (90)
T d2cqga1          79 DCKLP   83 (90)
T ss_dssp             EEECC
T ss_pred             EEEeC
Confidence            99854

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=7.3e-14  Score=122.87  Aligned_cols=76  Identities=21%  Similarity=0.270  Sum_probs=64.1

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--ce
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--SI  539 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--r~  539 (967)
                      .++|||+|||+.+|+++|+++|++||.+..+.      .+.+..++.++|||||+|.+.++|..|++ |||..|.|  ++
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~------i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~   79 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSR------ILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEP   79 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccc------cccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEE
Confidence            46899999999999999999999999644321      33455678899999999999999999999 99999988  45


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |.|.+
T Consensus        80 i~V~~   84 (85)
T d1fxla2          80 ITVKF   84 (85)
T ss_dssp             CEEEE
T ss_pred             EEEEe
Confidence            77763

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1.9e-13  Score=125.70  Aligned_cols=76  Identities=13%  Similarity=0.272  Sum_probs=70.2

Q ss_pred             CceEEEcCCCc-ccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          574 PHKIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       574 ~~~L~V~nLp~-~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..+|||+|||+ .+|+++|+++|+.||.|..|.|+.+   .+|||||+|.++++|.+|++.|||..|.|+.|.|.++...
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~---~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN---KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCT---TSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEec---ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            46899999965 6999999999999999999999887   5899999999999999999999999999999999998543

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=2.6e-13  Score=121.38  Aligned_cols=79  Identities=23%  Similarity=0.324  Sum_probs=65.3

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+.+|+++|+++|+.||.+..+..      +.  ..+.++|||||+|.+.++|..|+. |||..|.|+
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~------~~--~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~   79 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEI------IF--NERGSKGFGFVTFENSADADRAREKLHGTVVEGR   79 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEE------EC--CTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccc------cc--cccCCcceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            455679999999999999999999999996333211      11  234478999999999999999998 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      .|+|.++.
T Consensus        80 ~l~V~~A~   87 (93)
T d2cq3a1          80 KIEVNNAT   87 (93)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEecC
Confidence            99998643

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=1.4e-13  Score=126.91  Aligned_cols=73  Identities=21%  Similarity=0.202  Sum_probs=66.1

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      +..++|||+|||+.+|+++|+++|..||            .|..+.+..++|||||+|.+.++|..||. |||..|.|++
T Consensus         8 r~~~~l~V~nLp~~~t~~~L~~~F~~fG------------~I~~v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~   75 (111)
T d1whxa_           8 RSKTVILAKNLPAGTLAAEIQETFSRFG------------SLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVP   75 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTS------------CEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhhccC------------CccEEEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCCe
Confidence            3456999999999999999999999999            45666777889999999999999999999 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.++
T Consensus        76 l~v~~a   81 (111)
T d1whxa_          76 LYLEWA   81 (111)
T ss_dssp             CEEEEE
T ss_pred             EEEEEC
Confidence            999854

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=1.9e-13  Score=123.16  Aligned_cols=80  Identities=28%  Similarity=0.360  Sum_probs=66.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-cc------Cc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD------GC  533 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-ln------g~  533 (967)
                      ...++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||+ ||      |.
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~------~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~   79 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVR------VVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGL   79 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEE------CCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCE
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceeee------eccccccccccceEEEEEcCHHHHHHHHHHcccccccCCc
Confidence            4567999999999999999999999999633321      33455678899999999999999999999 76      67


Q ss_pred             eeecceeEEeCCC
Q 002093          534 SFSGSILKIKRPK  546 (967)
Q Consensus       534 ~l~Gr~l~V~rp~  546 (967)
                      .|.|++|+|.++.
T Consensus        80 ~~~gr~l~v~~a~   92 (98)
T d1x4ha1          80 KLDGRQLKVDLAV   92 (98)
T ss_dssp             ESSSCEEEEECCC
T ss_pred             EECCEEEEEEECC
Confidence            8899999998543

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.41  E-value=8.1e-14  Score=122.49  Aligned_cols=77  Identities=21%  Similarity=0.262  Sum_probs=65.8

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--c
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--S  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--r  538 (967)
                      ..++|||+|||+++|+++|+++|+.||.+..+.      .+.+..++.++|||||+|.+.++|..||+ |||..+.|  +
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~------~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~   78 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKN------ILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQ   78 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEE------EEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeee------eecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCe
Confidence            456799999999999999999999999644332      33455678899999999999999999999 99999876  8


Q ss_pred             eeEEeC
Q 002093          539 ILKIKR  544 (967)
Q Consensus       539 ~l~V~r  544 (967)
                      +|+|.+
T Consensus        79 ~l~V~~   84 (85)
T d1b7fa2          79 PLSVRL   84 (85)
T ss_dssp             CCEEEE
T ss_pred             EEEEEE
Confidence            899974

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=4.2e-13  Score=120.40  Aligned_cols=78  Identities=24%  Similarity=0.308  Sum_probs=65.6

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+++|+++|+++|..||.+..+         .-.....++|||||+|.+.++|..||. |||..|.|+
T Consensus        11 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~---------~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~   81 (95)
T d1x4aa1          11 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDI---------DLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGY   81 (95)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEE---------EECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhcCCceEEE---------EecccccccceEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3556799999999999999999999999953221         222345678999999999999999999 999999999


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      +|+|.++.
T Consensus        82 ~l~V~~a~   89 (95)
T d1x4aa1          82 RLRVEFPR   89 (95)
T ss_dssp             ECEEECCC
T ss_pred             EEEEEecc
Confidence            99999643

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.39  E-value=1.2e-13  Score=121.78  Aligned_cols=78  Identities=18%  Similarity=0.147  Sum_probs=63.0

Q ss_pred             CCCEEEEeCCCCcch-HHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          462 PMRRLCVENLPLSAS-EKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       462 ~~r~LyVgNLp~~~T-eedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ..++|||+|||+++| +++|+++|+.||.+..+..     +..+..++.++|||||+|.+.++|..||+|||..|.|++|
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i-----~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l   77 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINI-----PAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREI   77 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEEC-----CSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceee-----ecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEE
Confidence            467999999999986 5669999999997444321     1223467889999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +|.+
T Consensus        78 ~V~~   81 (86)
T d2ghpa3          78 SVSL   81 (86)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9985

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=1.4e-13  Score=121.26  Aligned_cols=71  Identities=24%  Similarity=0.369  Sum_probs=64.5

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      .++|||+|||+++++++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. |||..|.|+.|+
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G------------~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~   75 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYG------------KAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLR   75 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTC------------CCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhC------------CceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            46899999999999999999999999            34566666789999999999999999999 999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.++
T Consensus        76 V~~A   79 (86)
T d2cpja1          76 VRFA   79 (86)
T ss_dssp             EEES
T ss_pred             EEEC
Confidence            9964

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=8.7e-14  Score=126.45  Aligned_cols=78  Identities=10%  Similarity=0.188  Sum_probs=70.4

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+++|||+|||..+++++|+++|+.||.|..+.+..+. +.++|||||+|.+.++|.+|+..|||..|.|+++.|.++.
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            46789999999999999999999999999999887764 3468999999999999999999999999999998876554

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=2e-13  Score=119.80  Aligned_cols=74  Identities=23%  Similarity=0.269  Sum_probs=62.0

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee---cCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~---~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      |||+|||+++|+++|+++|+.||.+..+.      .+.+..+   +.++|||||+|.+.++|..|+. |||..|.|++|.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~------i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~   74 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCT------ISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLE   74 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEE------EEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccc------eecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            89999999999999999999999644332      2233333   2468999999999999999998 999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.+.
T Consensus        75 V~~a   78 (85)
T d2cpfa1          75 VRIS   78 (85)
T ss_dssp             EECS
T ss_pred             EEEC
Confidence            9864

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=1.3e-13  Score=125.35  Aligned_cols=80  Identities=15%  Similarity=0.252  Sum_probs=73.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      +.++|||+|||..+++++|+++|++||.|..+.++.+  .+.++|||||+|.+.++|..|++.|||..|.|+.|.|.+|.
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            4679999999999999999999999999988877665  45679999999999999999999999999999999999997


Q ss_pred             cC
Q 002093          651 LD  652 (967)
Q Consensus       651 ~~  652 (967)
                      +.
T Consensus        97 ~k   98 (102)
T d2cpxa1          97 NK   98 (102)
T ss_dssp             CC
T ss_pred             Cc
Confidence            64

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=2.7e-13  Score=124.93  Aligned_cols=76  Identities=18%  Similarity=0.128  Sum_probs=70.1

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  653 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~~  653 (967)
                      .++|||+|||..+++++|+++|++||.|..|.|..    ++|||||+|.+.++|.+|++.|||..|.|++|.|.++....
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~----~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~   85 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec----cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCc
Confidence            47899999999999999999999999999998843    58999999999999999999999999999999999986543

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=5.2e-13  Score=120.16  Aligned_cols=80  Identities=29%  Similarity=0.461  Sum_probs=71.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhC------CCccCCeEE
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLN------GLKVGGQVL  644 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~Ln------G~~~~Gr~I  644 (967)
                      ..++|||+|||..+|+++|+++|++||.|..+.++.+..  .++|||||+|.+.++|.+|++.||      |..|.|+.|
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l   86 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQL   86 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEE
Confidence            357899999999999999999999999999999887753  468999999999999999999886      677899999


Q ss_pred             EEEEcccC
Q 002093          645 TAVQAVLD  652 (967)
Q Consensus       645 ~V~~a~~~  652 (967)
                      .|.+|.+.
T Consensus        87 ~v~~a~~k   94 (98)
T d1x4ha1          87 KVDLAVTR   94 (98)
T ss_dssp             EEECCCCC
T ss_pred             EEEECCCC
Confidence            99998653

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.38  E-value=8.2e-14  Score=124.18  Aligned_cols=80  Identities=16%  Similarity=0.219  Sum_probs=71.2

Q ss_pred             cCCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          571 KDSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       571 ~~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      +....+|||+|||..+++++|+++|+.||.|..+.|+.+ .+.++|||||+|.+.++|.+||+ |||..|+|+.|.|.+|
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~a   88 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   88 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECC
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEec
Confidence            345679999999999999999999999999988877554 35679999999999999999996 9999999999999988


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        89 k~   90 (91)
T d1fjeb1          89 KG   90 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.38  E-value=1.4e-13  Score=123.75  Aligned_cols=75  Identities=25%  Similarity=0.354  Sum_probs=65.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+++|+++|+++|+.||.+.           ....++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        13 ~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~-----------~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr   81 (96)
T d1fjca_          13 VRAARTLLAKNLSFNITEDELKEVFEDALEIR-----------LVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGR   81 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEEC-----------CEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcccce-----------eeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECCE
Confidence            34568999999999999999999999998421           112467889999999999999999998 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|+|.+.
T Consensus        82 ~i~V~~a   88 (96)
T d1fjca_          82 SVSLYYT   88 (96)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEEe
Confidence            9999853

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=3.4e-13  Score=118.52  Aligned_cols=76  Identities=12%  Similarity=0.085  Sum_probs=69.7

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .++|||+|||..+|+++|+++|+.||.|..|.|..+. +.++|||||+|.+.++|.+||+ ++|..|.|+.|.|.+..
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   82 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEGG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEcC
Confidence            5789999999999999999999999999999998774 3468999999999999999996 89999999999998763

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=3.4e-13  Score=122.02  Aligned_cols=88  Identities=19%  Similarity=0.311  Sum_probs=77.1

Q ss_pred             CCCCeEEEccccCCCCCCCCCChHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002093          676 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  755 (967)
Q Consensus       676 ~~ps~vl~L~Nl~~~~~L~~i~~~~~eei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~  755 (967)
                      ..++++|+|.||+++.++. -+++.+.+|.+||+++|++||.|..|.|+.+.   ..|++||+|.+.++|.+|+..|||+
T Consensus         5 ~~~~r~v~l~nmf~~~~~~-~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~---~~G~~fV~f~~~e~A~~A~~~lng~   80 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFE-DDPLVLNEIREDLRVECSKFGQIRKLLLFDRH---PDGVASVSFRDPEEADYCIQTLDGR   80 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHH-HCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC---TTCEEEEECSCHHHHHHHHHHSTTC
T ss_pred             CCCccEEEEccCCCHHHhh-cchHHHHHHHHHHHHHhcCcccEEEEeccCCC---CccEEEEEECCHHHHHHHHHHhCCc
Confidence            3578999999999988762 24556889999999999999999999998763   4589999999999999999999999


Q ss_pred             ccCCCcceeEEe
Q 002093          756 ETNEKGERLEEV  767 (967)
Q Consensus       756 ~~~~r~~~v~~~  767 (967)
                      .|+|+.+.+...
T Consensus        81 ~~~gr~i~v~~~   92 (99)
T d2dita1          81 WFGGRQITAQAW   92 (99)
T ss_dssp             EETTEECEEEEC
T ss_pred             EECCEEEEEEEe
Confidence            999999988653

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.4e-13  Score=125.01  Aligned_cols=77  Identities=19%  Similarity=0.215  Sum_probs=65.8

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....++|||+|||+++|+++|+++|+.||.+..+       .+....++.++|||||+|.+.++|.+||. |||..|.|+
T Consensus        15 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~-------~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr   87 (101)
T d1x5oa1          15 EQDPTNLYISNLPLSMDEQELENMLKPFGQVIST-------RILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTP   87 (101)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEE-------EEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCC
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhhcccccce-------eeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCc
Confidence            4456799999999999999999999999963322       22333567889999999999999999999 999999999


Q ss_pred             eeEEe
Q 002093          539 ILKIK  543 (967)
Q Consensus       539 ~l~V~  543 (967)
                      ++.|.
T Consensus        88 ~~~v~   92 (101)
T d1x5oa1          88 PGVSA   92 (101)
T ss_dssp             TTSCC
T ss_pred             CCccC
Confidence            99886

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=5e-13  Score=121.05  Aligned_cols=81  Identities=16%  Similarity=0.252  Sum_probs=70.6

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE--------EEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCe
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ  642 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~--------v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr  642 (967)
                      ...+|||+|||..+|+++|+++|+.||.|..        +.+..+.  +.++|||||+|.+.++|.+|++.|||..|+|+
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr   86 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGS   86 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCE
Confidence            4679999999999999999999999998853        4444543  34589999999999999999999999999999


Q ss_pred             EEEEEEcccCC
Q 002093          643 VLTAVQAVLDG  653 (967)
Q Consensus       643 ~I~V~~a~~~~  653 (967)
                      .|.|.+|.+..
T Consensus        87 ~i~V~~a~~~~   97 (101)
T d2cpea1          87 KLKVSLARKKP   97 (101)
T ss_dssp             ECEEECSSCCC
T ss_pred             EEEEEEcCCCC
Confidence            99999997644

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=1.8e-13  Score=121.44  Aligned_cols=75  Identities=23%  Similarity=0.365  Sum_probs=67.9

Q ss_pred             CCceEEEcCCCcccCHHHH---HHHHHhcCCeeEEEEeecCCC-----CCCEEEEeecCcchHHHHHHHhCCCccCCeEE
Q 002093          573 SPHKIFIGGISRTLSSKMV---MEIVCAFGPLKAYHFEVNEDH-----EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  644 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL---~e~Fsk~G~V~~v~l~~d~~~-----skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I  644 (967)
                      ..++|||+|||+.+++++|   .++|++||.|..|.|++++.+     ..|||||+|.+.++|.+|++.|||..|+|+.|
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            3578999999999999999   678999999999999988543     25899999999999999999999999999999


Q ss_pred             EEE
Q 002093          645 TAV  647 (967)
Q Consensus       645 ~V~  647 (967)
                      +|.
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            984

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=3.7e-13  Score=119.27  Aligned_cols=75  Identities=25%  Similarity=0.282  Sum_probs=62.5

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||+++|+++|+++|+.||.+..+..+      .+  .+.++|||||+|.+.++|..||. |||..|.|+.|.
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~------~~--~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~   79 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVV------CD--ENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF   79 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEEC------CB--TTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEE------ee--cCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            3479999999999999999999999963332111      11  24578999999999999999998 999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |.++
T Consensus        80 V~~a   83 (89)
T d1cvja2          80 VGRF   83 (89)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9853

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=6.4e-13  Score=117.41  Aligned_cols=77  Identities=10%  Similarity=0.079  Sum_probs=68.8

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc-CCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-GGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~-~Gr~I~V~~a~~  651 (967)
                      +.++|||+|||..+++++|+++|++||.|..+.+...  .++|||||+|.+.++|.+|+..|||..+ .|+.|.|.++.+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~--~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ--KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS--SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee--cccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            4678999999999999999999999999987766543  3589999999999999999999999988 589999999854

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=2.1e-13  Score=120.66  Aligned_cols=70  Identities=29%  Similarity=0.453  Sum_probs=62.8

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      .++|||+|||+++|+++|+++|++||.             ..+.++..+|||||+|.+.++|..|+. |||+.|.|+.|.
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G~-------------~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~   71 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYDL-------------KYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLI   71 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSCC-------------CCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcCc-------------eeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            468999999999999999999999882             234567789999999999999999999 999999999999


Q ss_pred             EeCC
Q 002093          542 IKRP  545 (967)
Q Consensus       542 V~rp  545 (967)
                      |...
T Consensus        72 V~~a   75 (88)
T d1wg1a_          72 VQLQ   75 (88)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9853

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=3.4e-13  Score=122.96  Aligned_cols=79  Identities=23%  Similarity=0.346  Sum_probs=64.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      .+.++|||+|||+.+|+++|+++|+.||. ..+..     .+....++.++|||||+|.+.++|.+|+.||+..|.|+.|
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~~g~-~~~~~-----~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l   86 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRGLNI-SAVRL-----PREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRI   86 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSCE-EEEEC-----CBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhcc-cccee-----eeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEE
Confidence            34579999999999999999999999982 22111     1223356789999999999999999888899999999999


Q ss_pred             EEeCC
Q 002093          541 KIKRP  545 (967)
Q Consensus       541 ~V~rp  545 (967)
                      +|.++
T Consensus        87 ~V~~a   91 (104)
T d1wi8a_          87 RVDVA   91 (104)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            99853

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=8.4e-14  Score=123.02  Aligned_cols=73  Identities=11%  Similarity=0.106  Sum_probs=67.2

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ++|||+|||..+++++|+++|++||.|..+.+..     .|||||+|.+.++|.+||..|||..|.|+.|.|.++.+.
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR-----DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT-----TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccc-----cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEecC
Confidence            5799999999999999999999999999998854     499999999999999999999999999999998876543

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=3.8e-13  Score=115.37  Aligned_cols=66  Identities=24%  Similarity=0.458  Sum_probs=61.0

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEEeC
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKR  544 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V~r  544 (967)
                      |||+|||+++|+++|+++|.+||.             ..+.++.++|||||+|.+.++|.+|+. |||..|.|++|+|.+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g~-------------~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~   67 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYEL-------------KYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQL   67 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSCE-------------EEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhcccc-------------cceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEE
Confidence            799999999999999999999872             455678899999999999999999998 999999999999985

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=3.7e-13  Score=116.60  Aligned_cols=71  Identities=21%  Similarity=0.212  Sum_probs=63.5

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      +..++|||+||+  +|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~------------I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~   68 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGN------------IIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQ   68 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCC------------CSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCc------------cceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEE
Confidence            456799999996  899999999999994            4566667889999999999999999998 9999999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |+|.+.
T Consensus        69 l~V~~a   74 (79)
T d2bz2a1          69 LKVNIA   74 (79)
T ss_dssp             CEEEEC
T ss_pred             EEEEEe
Confidence            999854

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=4.5e-13  Score=121.00  Aligned_cols=74  Identities=26%  Similarity=0.425  Sum_probs=67.8

Q ss_pred             CCceEEEcCCC-cccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp-~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ...+|||+||| ..+++++|+++|++||.|..|.|      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   87 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAE   87 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTS
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            35689999997 57888999999999999999988      479999999999999999999999999999999999965


Q ss_pred             C
Q 002093          652 D  652 (967)
Q Consensus       652 ~  652 (967)
                      .
T Consensus        88 ~   88 (98)
T d1wf2a_          88 P   88 (98)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=5.6e-13  Score=117.80  Aligned_cols=75  Identities=20%  Similarity=0.204  Sum_probs=63.3

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee-ecc
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-SGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l-~Gr  538 (967)
                      .+.++|||+|||+.+|+++|+++|+.||.+..          .....+.++|||||+|.+.++|..|+. |||..+ .|+
T Consensus         8 pPs~tL~V~NLp~~~te~~l~~~F~~~G~v~~----------~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~   77 (88)
T d2adca2           8 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVK----------GFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENH   77 (88)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEE----------EEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHhhccCCEEE----------EEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCC
Confidence            35679999999999999999999999995221          223456779999999999999999998 999888 589


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|+|...
T Consensus        78 ~l~v~~s   84 (88)
T d2adca2          78 HLRVSFS   84 (88)
T ss_dssp             BCEEEEC
T ss_pred             EEEEEeC
Confidence            9999853

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=8.3e-13  Score=120.38  Aligned_cols=81  Identities=15%  Similarity=0.240  Sum_probs=69.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~  648 (967)
                      .++++|||+|||..+|+++|+++|+.|| |..+.++.+.   +.++|||||+|.+.++|.+|+ .|||..|+|+.|.|.+
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~   90 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDV   90 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEE
Confidence            3568999999999999999999999999 6677776653   345899999999999998777 5999999999999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      |.+...
T Consensus        91 a~~~~~   96 (104)
T d1wi8a_          91 ADQAQD   96 (104)
T ss_dssp             CCCCCC
T ss_pred             CCCCCC
Confidence            976543

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=5.7e-13  Score=119.73  Aligned_cols=80  Identities=18%  Similarity=0.228  Sum_probs=70.6

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCC-eeEEEEeecC---CCCCCEEEEeecCcchHHHHHHHhCC--CccCCeEEEEEE
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAVQ  648 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~-V~~v~l~~d~---~~skG~aFVeF~~~e~A~~Al~~LnG--~~~~Gr~I~V~~  648 (967)
                      ++|||+|||..+++++|+++|+.||. |..|.|+.+.   +.++|||||+|.+.++|..|++.|++  ..++|+.|.|.|
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            57999999999999999999999995 8999998763   35689999999999999999999965  566899999999


Q ss_pred             cccCCC
Q 002093          649 AVLDGS  654 (967)
Q Consensus       649 a~~~~~  654 (967)
                      |.|...
T Consensus        82 A~p~~~   87 (96)
T d2disa1          82 AEPEID   87 (96)
T ss_dssp             SCSSCS
T ss_pred             cCCCCC
Confidence            976543

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.35  E-value=2.9e-13  Score=121.77  Aligned_cols=79  Identities=11%  Similarity=0.220  Sum_probs=70.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..++|||+|||..+|+++|+++|++||.|..+.   ..+.++|||||+|.+.++|.+|+..|||..|+|+.|.|.++.+.
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~---~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k   91 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVS---QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK   91 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEE---ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcccceeee---ecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCC
Confidence            457999999999999999999999999886554   34456999999999999999999999999999999999999775


Q ss_pred             CC
Q 002093          653 GS  654 (967)
Q Consensus       653 ~~  654 (967)
                      ..
T Consensus        92 ~~   93 (96)
T d1fjca_          92 GG   93 (96)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=7e-13  Score=117.27  Aligned_cols=75  Identities=15%  Similarity=0.223  Sum_probs=65.7

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ...+|||+|||..+++++|+++|++|| +..+.+..    .+|||||+|.+.++|.+|++.|||..|.|+.|.|.++...
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~----~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~   78 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDR----NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEG----GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeec----cCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            357899999999999999999999999 33344432    5899999999999999999999999999999999998543

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=3.1e-13  Score=119.58  Aligned_cols=77  Identities=13%  Similarity=0.261  Sum_probs=69.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      ..++|||+|||..+|+++|+++|++||.|..|.+..+   ++|||||+|.+.++|.+|+.  +++.|.|+.|.|.+|.+.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~---~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k   78 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPK   78 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec---cCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCC
Confidence            4689999999999999999999999999999987554   68999999999999999984  889999999999999765


Q ss_pred             CC
Q 002093          653 GS  654 (967)
Q Consensus       653 ~~  654 (967)
                      ..
T Consensus        79 ~~   80 (88)
T d1wf0a_          79 HN   80 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.34  E-value=1.3e-12  Score=117.57  Aligned_cols=77  Identities=19%  Similarity=0.338  Sum_probs=70.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC--eEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G--r~I~V~~a~  650 (967)
                      +.++|||+|||..+++++|+++|++||.|..|.+.++    ++||||+|.+.++|..|++.|||..|.|  +.|.|.|+.
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~----~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc----ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            4689999999999999999999999999999998764    8999999999999999999999999976  589999997


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +.+
T Consensus        92 ~~~   94 (97)
T d1whya_          92 SGP   94 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            644

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=7.7e-13  Score=116.32  Aligned_cols=75  Identities=19%  Similarity=0.295  Sum_probs=65.5

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+|||+|||+++|+++|+++|..||.+...      ..+....++.++|||||+|.+.++|.+||. |||..|.|++|+
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~------~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~   82 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGS------VCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVK   82 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTT------CEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeE------EEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEE
Confidence            4579999999999999999999999864331      134556778999999999999999999998 999999999999


Q ss_pred             Ee
Q 002093          542 IK  543 (967)
Q Consensus       542 V~  543 (967)
                      |.
T Consensus        83 v~   84 (86)
T d2cqpa1          83 LV   84 (86)
T ss_dssp             EE
T ss_pred             EE
Confidence            96

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=5.3e-13  Score=118.74  Aligned_cols=78  Identities=15%  Similarity=0.255  Sum_probs=69.3

Q ss_pred             CceEEEcCCCcccCHHHHHH----HHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          574 PHKIFIGGISRTLSSKMVME----IVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e----~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .++|||+|||..+++++|++    +|++||.|..|.+... +.++|||||+|.+.++|.+|++.|||..|.|+.|.|.+|
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~-~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~a   81 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   81 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee-ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            57899999999999998864    5899999999987543 335899999999999999999999999999999999999


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      .+.
T Consensus        82 k~~   84 (91)
T d1nu4a_          82 KTD   84 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            654

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=9.4e-14  Score=126.96  Aligned_cols=85  Identities=22%  Similarity=0.275  Sum_probs=65.5

Q ss_pred             cccccccccCCCcchhcccccccCCCCccccccccccccccccccCCCCCCCCCCC-Cccc--------------ccceE
Q 002093          860 IQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQ-GHIF--------------EPGCV  924 (967)
Q Consensus       860 i~~~c~~~~n~f~~~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~~~~~~e~~~-~~v~--------------~~G~V  924 (967)
                      .++.|+.|.|||++.+... .                   +...++.+|+.++|++ |.|.              ..|+|
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~-~-------------------~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~v   61 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLD-D-------------------EEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKI   61 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTS-H-------------------HHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEE
T ss_pred             CCCcEEEEeCCCCHHHcCC-c-------------------hhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEE
Confidence            3688999999988766322 0                   1123455555666665 3321              24899


Q ss_pred             EEEecCHHHHHHHHHHhhccccCCceEEEEecChhhHHhh
Q 002093          925 FVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR  964 (967)
Q Consensus       925 yVkF~s~eaA~~A~~aLhGR~FagR~I~A~yv~~~~Y~~~  964 (967)
                      ||+|.++++|.+|+++||||||+||+|.|.|++++.|++.
T Consensus        62 fV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~~y~~~  101 (104)
T d1o0pa_          62 FVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR  101 (104)
T ss_dssp             EEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHHHHHHT
T ss_pred             EEEECCHHHHHHHHHHHCCCEECCeEEEEEEcCHHHhhhc
Confidence            9999999999999999999999999999999999999864

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.33  E-value=9.5e-13  Score=112.83  Aligned_cols=72  Identities=17%  Similarity=0.176  Sum_probs=60.5

Q ss_pred             EEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeEEeC
Q 002093          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (967)
Q Consensus       465 ~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~V~r  544 (967)
                      +|||+|||+++|+++|+++|..||.+..+.       +.. ..+..++||||+|.+.++|.+||.+|+..|.|++|.|.+
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~~v~-------~~~-~~~~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~   73 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVD-------VAD-SLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSH   73 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEE-------EEE-CTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEEE-------EEe-eccccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEE
Confidence            799999999999999999999999643321       111 223456899999999999999999999999999999974

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.33  E-value=1.3e-12  Score=114.24  Aligned_cols=74  Identities=27%  Similarity=0.303  Sum_probs=62.1

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCcee-e
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSF-S  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l-~  536 (967)
                      .+++++|||+|||.++|+++|.++|+.||.            |..+.. ...+|||||+|.+.++|..|+. |||..| .
T Consensus         5 ~pP~~tl~V~nLp~~~t~~~l~~~f~~~G~------------i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~   72 (83)
T d2b0ga1           5 QPPNQILFLTNLPEETNEMMLSMLFNQFPG------------FKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITP   72 (83)
T ss_dssp             CSCCSEEEEESCCTTCCHHHHHHHHTTSTT------------EEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSST
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhccCcc------------EEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCC
Confidence            345789999999999999999999999994            333332 3357999999999999999999 999888 4


Q ss_pred             cceeEEeCC
Q 002093          537 GSILKIKRP  545 (967)
Q Consensus       537 Gr~l~V~rp  545 (967)
                      |++|+|.++
T Consensus        73 ~~~i~v~~a   81 (83)
T d2b0ga1          73 THAMKITFA   81 (83)
T ss_dssp             TCBCEEEEC
T ss_pred             CcEEEEEEe
Confidence            689999854

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=1.2e-12  Score=112.24  Aligned_cols=71  Identities=17%  Similarity=0.289  Sum_probs=63.9

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcccC
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  652 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~~  652 (967)
                      |||+|||..+++++|+++|++|| +..+.+.    .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~----~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD----KYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEE----TTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeec----ccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999 5555543    36999999999999999999999999999999999999543

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=7.4e-13  Score=120.83  Aligned_cols=78  Identities=19%  Similarity=0.241  Sum_probs=66.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      .....|||+|||+++|+++|+++|..||.+...  +    .++...++.++|||||+|.++++|.+||++|+..|.|+.|
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~--v----~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i   86 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNG--M----TLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYI   86 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEE--E----ECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEE--E----EEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEE
Confidence            445689999999999999999999999853321  1    3345567889999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus        87 ~V~~   90 (104)
T d1wg5a_          87 EIFK   90 (104)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9984

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=1.2e-12  Score=115.60  Aligned_cols=74  Identities=22%  Similarity=0.257  Sum_probs=65.7

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c--cCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l--ng~~l~  536 (967)
                      ..++++|||+|||+.+|+++|+++|++||            .|..+.+..++|||||+|.+.++|..|+. +  ++..+.
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G------------~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~   72 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFG------------KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLR   72 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccc------------ccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccC
Confidence            35788999999999999999999999999            45666777889999999999999999997 4  678999


Q ss_pred             cceeEEeCC
Q 002093          537 GSILKIKRP  545 (967)
Q Consensus       537 Gr~l~V~rp  545 (967)
                      |++|+|.+.
T Consensus        73 g~~l~v~~s   81 (88)
T d2cq1a1          73 NQPIYIQYS   81 (88)
T ss_dssp             TEECEEEEC
T ss_pred             CCEEEEEEC
Confidence            999999853

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=2.2e-13  Score=115.68  Aligned_cols=69  Identities=13%  Similarity=0.311  Sum_probs=64.0

Q ss_pred             EEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCC--CCCCEEEEeecCcchHHHHHHHhCCCccCCeEEE
Q 002093          577 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  645 (967)
Q Consensus       577 L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~--~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~  645 (967)
                      |||+|||..+|+++|+++|++||.|..+.+..++.  .++|||||+|.+.++|.+|++.|||..|.|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            79999999999999999999999999999888753  4699999999999999999999999999998763

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=1.6e-12  Score=115.58  Aligned_cols=77  Identities=25%  Similarity=0.323  Sum_probs=61.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHH----HHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          461 RPMRRLCVENLPLSASEKALMEF----LNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~----F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      +|+++|||+|||+.+|+++|++.    |++||.+..         |....++.++|||||+|.+.++|..|+. |||..|
T Consensus         1 ~P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~---------i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~   71 (91)
T d1nu4a_           1 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILD---------ILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPF   71 (91)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEE---------EECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccc---------eEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEE
Confidence            35789999999999999999765    556663221         1122346689999999999999999998 999999


Q ss_pred             ecceeEEeCCC
Q 002093          536 SGSILKIKRPK  546 (967)
Q Consensus       536 ~Gr~l~V~rp~  546 (967)
                      .|+.|.|.+++
T Consensus        72 ~g~~l~v~~ak   82 (91)
T d1nu4a_          72 YDKPMRIQYAK   82 (91)
T ss_dssp             TTEECEEEECS
T ss_pred             CCEEEEEEEeC
Confidence            99999998643

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=1.6e-13  Score=116.54  Aligned_cols=70  Identities=16%  Similarity=0.273  Sum_probs=60.6

Q ss_pred             EEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeE
Q 002093          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       466 LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      |||+|||+++|+++|+++|..||.+..+.      .+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~------~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTK------AILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEE------EECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccc------cccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            89999999999999999999999644321      33455678899999999999999999999 999999998874

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.31  E-value=1.6e-12  Score=117.36  Aligned_cols=71  Identities=27%  Similarity=0.247  Sum_probs=62.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      +..++|||+|||+.+++++|+++|+.||.            |..+.+. .+|||||+|.+.++|..||+ |||..|.|+.
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~------------v~~~~i~-~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~   79 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAGD------------VCYADVQ-KDGMGMVEYLRKEDMEYALRKLDDTKFRSHE   79 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSSC------------EEEEEEE-TTTEEEEEESSHHHHHHHHHHHSSEEEECTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhcc------------ccccccc-ccceEEEEECCHHHHHHHHHHhCCCEeCCeE
Confidence            45678999999999999999999999994            3333332 57999999999999999998 9999999999


Q ss_pred             eEEeC
Q 002093          540 LKIKR  544 (967)
Q Consensus       540 l~V~r  544 (967)
                      |+|..
T Consensus        80 i~v~~   84 (98)
T d1wg4a_          80 GETSY   84 (98)
T ss_dssp             SCEEE
T ss_pred             EEEEE
Confidence            99974

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.31  E-value=3.1e-12  Score=116.59  Aligned_cols=75  Identities=21%  Similarity=0.138  Sum_probs=66.2

Q ss_pred             CCCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c--cCceee
Q 002093          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l--ng~~l~  536 (967)
                      ..++++|||+|||+.+||++|.++|..||            .|..+.+.+.+|||||+|.+.++|..||. |  +++.+.
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG------------~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~   79 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFG------------TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIA   79 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcc------------cceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEe
Confidence            45678999999999999999999999999            45667777899999999999999999998 6  567889


Q ss_pred             cceeEEeCCC
Q 002093          537 GSILKIKRPK  546 (967)
Q Consensus       537 Gr~l~V~rp~  546 (967)
                      |++|+|.+.+
T Consensus        80 g~~l~v~~s~   89 (104)
T d1wexa_          80 GQQAFFNYST   89 (104)
T ss_dssp             SSBCEEEECS
T ss_pred             eEEEEEEEcC
Confidence            9999998543

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=7.9e-13  Score=116.89  Aligned_cols=72  Identities=17%  Similarity=0.176  Sum_probs=62.0

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeee-eecCCCcEEEEEEcCHHHHHHHHHccCceeecce
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC-VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~-~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~  539 (967)
                      ..+++|||+|||+.+|+++|+++|++||.+            .++ .+..++|||||+|.+.++|..||. ++..|.|++
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v------------~~v~~~~~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~   69 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDV------------MDVFIPKPFRAFAFVTFADDQIAQSLCG-EDLIIKGIS   69 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCC------------CEEECCSSCCSCCEEECSCHHHHHHTTT-CEEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCc------------eEEEEeeccCceEEEEECCHHHHHHHHh-CCCEECCEE
Confidence            456799999999999999999999999942            233 235679999999999999999996 888999999


Q ss_pred             eEEeCC
Q 002093          540 LKIKRP  545 (967)
Q Consensus       540 l~V~rp  545 (967)
                      |.|.++
T Consensus        70 l~v~~a   75 (88)
T d1wf0a_          70 VHISNA   75 (88)
T ss_dssp             EEEECC
T ss_pred             eEEEeC
Confidence            999864

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=2.2e-12  Score=116.14  Aligned_cols=73  Identities=22%  Similarity=0.269  Sum_probs=63.9

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeec--
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--  537 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~G--  537 (967)
                      .+.++|||+|||+++|+++|+++|++||            .|..+.+.+.++||||+|.+.++|..|+. |||..|.|  
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~G------------~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~   82 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRFG------------SIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPD   82 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTS------------CEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSS
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhhc------------ccceEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCc
Confidence            3567999999999999999999999999            45566667789999999999999999999 99999977  


Q ss_pred             ceeEEeCC
Q 002093          538 SILKIKRP  545 (967)
Q Consensus       538 r~l~V~rp  545 (967)
                      ++|+|.++
T Consensus        83 ~~l~v~~a   90 (97)
T d1whya_          83 RRLRVDFA   90 (97)
T ss_dssp             CBCEEEEC
T ss_pred             eEEEEEeC
Confidence            46888753

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=1.2e-12  Score=118.11  Aligned_cols=71  Identities=25%  Similarity=0.469  Sum_probs=61.0

Q ss_pred             CCCCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecc
Q 002093          461 RPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (967)
Q Consensus       461 ~~~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr  538 (967)
                      ....+|||+|||+ .+++++|+++|.+||.            |..+.+  ++|||||+|.+.++|..||. |||..|.|+
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~------------i~~~~i--~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~   78 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYGK------------IVGCSV--HKGFAFVQYVNERNARAAVAGEDGRMIAGQ   78 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSSC------------EEEEEE--ETEEEEEEESSHHHHHHHHHTTTTCEETTE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcCC------------EEEEEE--eCCeEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            3456799999975 6788999999999994            444444  58999999999999999999 999999999


Q ss_pred             eeEEeCC
Q 002093          539 ILKIKRP  545 (967)
Q Consensus       539 ~l~V~rp  545 (967)
                      +|+|.+.
T Consensus        79 ~l~V~~a   85 (98)
T d1wf2a_          79 VLDINLA   85 (98)
T ss_dssp             ECEEEET
T ss_pred             EEEEEEC
Confidence            9999864

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=1e-12  Score=115.43  Aligned_cols=77  Identities=14%  Similarity=0.236  Sum_probs=67.9

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      .+.+|||+|||..+++++|+++|+.||.|.. +.+..+ .+.++|+|||+|.+.++|.+|++.|||..++|++|.|..+
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            4678999999999999999999999999866 444444 3456999999999999999999999999999999999764

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=8.2e-13  Score=116.54  Aligned_cols=68  Identities=24%  Similarity=0.237  Sum_probs=59.6

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCceeecceeEE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~l~V  542 (967)
                      ++|||+|||+++|+++|+++|++||.            |..+.+. ..|||||+|.+.++|..||. |||..|.|+.|+|
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~------------v~~~~i~-~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v   67 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGD------------VCYADVY-RDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGET   67 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSC------------EEEEEEC-TTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCC
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcc------------ccccccc-ccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEE
Confidence            37999999999999999999999994            3444432 45999999999999999998 9999999999988


Q ss_pred             eC
Q 002093          543 KR  544 (967)
Q Consensus       543 ~r  544 (967)
                      ..
T Consensus        68 ~~   69 (87)
T d3begb1          68 AY   69 (87)
T ss_dssp             CB
T ss_pred             eE
Confidence            74

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=2.8e-12  Score=117.68  Aligned_cols=72  Identities=21%  Similarity=0.256  Sum_probs=61.3

Q ss_pred             CCEEEEeCCCC-cchHHHHHHHHHHhhhhcCcccccCCcCeeeeee-cCCCcEEEEEEcCHHHHHHHHH-ccCceeecce
Q 002093          463 MRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (967)
Q Consensus       463 ~r~LyVgNLp~-~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~-~~skG~aFVeF~~~e~A~~Al~-lng~~l~Gr~  539 (967)
                      +++|||+|||+ .+|+++|+++|+.||.            |..+.+ ...+|||||+|.+.++|..||+ |||..|.|+.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~------------I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~   69 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGD------------VQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKP   69 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTC------------EEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSB
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccc------------cceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            46899999965 5999999999999995            333332 2347999999999999999999 9999999999


Q ss_pred             eEEeCCC
Q 002093          540 LKIKRPK  546 (967)
Q Consensus       540 l~V~rp~  546 (967)
                      |+|.+.+
T Consensus        70 l~v~~s~   76 (109)
T d2adca1          70 IRITLSK   76 (109)
T ss_dssp             CEEECCS
T ss_pred             EEEEECC
Confidence            9999654

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.1e-12  Score=119.44  Aligned_cols=77  Identities=17%  Similarity=0.228  Sum_probs=66.0

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecceeE
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l~  541 (967)
                      ...+|||+|||+++|+++|+++|..||.+...      ..+....+|.++|||||+|.+.++|..||.|||..|.|+.|.
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~------~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~   80 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIPVDENA------VHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAF   80 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTT------EEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccceEEEE------EEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEE
Confidence            34689999999999999999999999853321      123445678999999999999999999999999999999999


Q ss_pred             EeC
Q 002093          542 IKR  544 (967)
Q Consensus       542 V~r  544 (967)
                      |..
T Consensus        81 V~~   83 (103)
T d2cpya1          81 VHV   83 (103)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            984

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.6e-12  Score=116.72  Aligned_cols=79  Identities=18%  Similarity=0.201  Sum_probs=62.9

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeee-eecCCCcEEEEEEcCHHHHHHHHH-ccC--ceeecc
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC-VIQREKGQAFVEFLTAEDASAALC-CDG--CSFSGS  538 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~-~~~~skG~aFVeF~~~e~A~~Al~-lng--~~l~Gr  538 (967)
                      +++|||+|||..+|+++|+++|+.||..  +..+.   .+.+. ..+.++|||||+|.+.++|..|+. |++  +.+.|+
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~--i~~v~---~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~   75 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEG--VLDVI---VYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGH   75 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTT--EEEEE---CCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTB
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCc--ceEEE---EeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCE
Confidence            3689999999999999999999999951  22221   22232 357899999999999999999999 754  667899


Q ss_pred             eeEEeCCC
Q 002093          539 ILKIKRPK  546 (967)
Q Consensus       539 ~l~V~rp~  546 (967)
                      +|.|.++.
T Consensus        76 ~i~V~~A~   83 (96)
T d2disa1          76 QIAVDWAE   83 (96)
T ss_dssp             CCEEEESC
T ss_pred             EEEEEEcC
Confidence            99999653

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.29  E-value=2.2e-12  Score=116.44  Aligned_cols=77  Identities=12%  Similarity=0.107  Sum_probs=70.3

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ....+|||+|||..+++++|+++|++||.|..+.|..     +|||||+|.+.++|.+||+.|||..|.|+.|.|.++.+
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~   87 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-----DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRV   87 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-----TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc-----cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEec
Confidence            3467899999999999999999999999999998853     69999999999999999999999999999999999865


Q ss_pred             CC
Q 002093          652 DG  653 (967)
Q Consensus       652 ~~  653 (967)
                      ..
T Consensus        88 ~~   89 (98)
T d1wg4a_          88 YP   89 (98)
T ss_dssp             EC
T ss_pred             CC
Confidence            43

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.9e-12  Score=117.59  Aligned_cols=80  Identities=13%  Similarity=0.209  Sum_probs=69.7

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...++|||+|||+.+|+++|+++|..||.+ .|.++.+. +..+|||||+|.+.++|.+|++ |||..|+|+.|.|.++.
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcC
Confidence            446799999999999999999999999865 56666663 4569999999999999999986 89999999999999986


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        91 ~~~   93 (102)
T d1weza_          91 TAG   93 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            644

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=6.1e-13  Score=120.98  Aligned_cols=76  Identities=25%  Similarity=0.242  Sum_probs=64.4

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ....+|||+|||+++|+++|+++|..||.    ..+    .++....+..+|||||+|.+.++|..||+||+..|.|+.|
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~----~~v----~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I   84 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNP----MRV----HIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV   84 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCC----SEE----EEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCc----cee----eeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEE
Confidence            45579999999999999999999988762    122    2233456788999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      +|.+
T Consensus        85 ~V~~   88 (102)
T d1weza_          85 ELFL   88 (102)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9984

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.29  E-value=5.5e-12  Score=114.95  Aligned_cols=77  Identities=10%  Similarity=0.100  Sum_probs=69.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh--CCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L--nG~~~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||..+++++|.++|++||.|..|.+.+    .+|+|||+|.+.++|..|+..|  ++..++|++|.|.++
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~----~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s   88 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYS   88 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe----cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEc
Confidence            3567999999999999999999999999999999876    4899999999999999999977  567889999999999


Q ss_pred             ccC
Q 002093          650 VLD  652 (967)
Q Consensus       650 ~~~  652 (967)
                      ...
T Consensus        89 ~~~   91 (104)
T d1wexa_          89 TSK   91 (104)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            654

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=1.6e-12  Score=119.32  Aligned_cols=79  Identities=15%  Similarity=0.221  Sum_probs=71.0

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc--CCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV--GGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~--~Gr~I~V~~a~  650 (967)
                      +..+|||+|||..+|+++|+++|++||.|..|.|..++  ++|||||+|.+.++|..|+..|||..|  .|+.|.|.++.
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~--~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET--TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC--CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            34679999999999999999999999999999998764  589999999999999999999999988  68889999986


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        84 ~~~   86 (108)
T d2adba1          84 LTS   86 (108)
T ss_dssp             SCS
T ss_pred             Ccc
Confidence            643

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=3.2e-12  Score=112.87  Aligned_cols=76  Identities=11%  Similarity=0.096  Sum_probs=69.1

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh--CCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L--nG~~~~Gr~I~V~~a  649 (967)
                      .+..+|||+|||..+++++|+++|++||.|..+.+..+    +|||||+|.+.++|.+|++.|  ++..+.|++|.|.++
T Consensus         6 ~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~----~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~s   81 (88)
T d2cq1a1           6 APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYS   81 (88)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccccccccccccc----ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEEC
Confidence            35689999999999999999999999999999998764    799999999999999999865  678999999999998


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        82 k~   83 (88)
T d2cq1a1          82 NH   83 (88)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=1.6e-12  Score=118.26  Aligned_cols=79  Identities=14%  Similarity=0.119  Sum_probs=68.8

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeE-EEEeec-CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~-v~l~~d-~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ....+|||+|||+.+|+++|+++|..||.|.. +.+..+ .+.++|||||+|.+.++|.+||+ |||..|+|+.|.|.++
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~   84 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVV   84 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEEC
Confidence            34678999999999999999999999999876 444443 45679999999999999999996 9999999999999887


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      ..
T Consensus        85 ~~   86 (103)
T d2cpya1          85 TL   86 (103)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.26  E-value=6.6e-13  Score=117.72  Aligned_cols=75  Identities=19%  Similarity=0.225  Sum_probs=60.1

Q ss_pred             CCEEEEeCCCCcchHHHH---HHHHHHhhhhcCcccccCCcCeeeeeecC---CCcEEEEEEcCHHHHHHHHH-ccCcee
Q 002093          463 MRRLCVENLPLSASEKAL---MEFLNNFLLSSGVQHVHGSLPCIGCVIQR---EKGQAFVEFLTAEDASAALC-CDGCSF  535 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL---~~~F~~fG~~~g~~~v~~~~~v~~~~~~~---skG~aFVeF~~~e~A~~Al~-lng~~l  535 (967)
                      .++|||+|||+.+|+++|   .++|.+||.+..+..      +.+..++.   .+|||||+|.+.++|..|++ |||..|
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i------~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~   81 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVI------NNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVV   81 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEE------ECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEE------eeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEE
Confidence            457999999999999999   678999986444321      12323333   34899999999999999999 999999


Q ss_pred             ecceeEEe
Q 002093          536 SGSILKIK  543 (967)
Q Consensus       536 ~Gr~l~V~  543 (967)
                      .|++|+|.
T Consensus        82 ~gr~lkvS   89 (89)
T d2cpia1          82 DGRTLKAS   89 (89)
T ss_dssp             TTEEEEEE
T ss_pred             CCEEEEEC
Confidence            99999974

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=2e-12  Score=119.57  Aligned_cols=78  Identities=21%  Similarity=0.340  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeeccee
Q 002093          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~l  540 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..      ...+.....|.++|||||+|.+.++|.+||.|||..|.|+.|
T Consensus        16 ~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~------~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i   89 (112)
T d1wela1          16 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVED------SIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFI   89 (112)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTT------TCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCB
T ss_pred             CCCeEEEEecCCCcCcHHHHhhHHhhcccccc------ceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEE
Confidence            34669999999999999999999999885332      123455667899999999999999999999999999999999


Q ss_pred             EEeC
Q 002093          541 KIKR  544 (967)
Q Consensus       541 ~V~r  544 (967)
                      .|..
T Consensus        90 ~V~~   93 (112)
T d1wela1          90 QVHP   93 (112)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9973

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=5.8e-12  Score=114.76  Aligned_cols=80  Identities=10%  Similarity=0.139  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC--CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~--~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      ...+|||+|||+.+|+++|+++|..||.|..+.++.+.  +.++|||||+|.+.++|.+|++ ||+..|+|+.|.|.++.
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEECC
Confidence            45689999999999999999999999998875454442  3468999999999999999996 99999999999999986


Q ss_pred             cCC
Q 002093          651 LDG  653 (967)
Q Consensus       651 ~~~  653 (967)
                      +..
T Consensus        93 ~~~   95 (104)
T d1wg5a_          93 RAE   95 (104)
T ss_dssp             TTT
T ss_pred             HHH
Confidence            643

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=7.8e-12  Score=113.94  Aligned_cols=78  Identities=9%  Similarity=0.028  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCccc-CH----HHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          573 SPHKIFIGGISRTL-SS----KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       573 ~~~~L~V~nLp~~~-te----edL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ..++|||+||+..+ ++    ++|+++|+.||.|.++.+.+    ++|||||+|.+.++|.+|+..|||..|+|+.|.|.
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~   79 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLY   79 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec----CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEe
Confidence            46789999999876 33    56999999999999999875    58999999999999999999999999999999999


Q ss_pred             EcccCCC
Q 002093          648 QAVLDGS  654 (967)
Q Consensus       648 ~a~~~~~  654 (967)
                      ++.+...
T Consensus        80 ~a~~~~~   86 (104)
T d1weya_          80 FAQTLHI   86 (104)
T ss_dssp             CCCCSSC
T ss_pred             ecccCCC
Confidence            9966543

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.23  E-value=6.2e-12  Score=111.31  Aligned_cols=77  Identities=16%  Similarity=0.079  Sum_probs=69.2

Q ss_pred             CCCceEEEcCCCcc-cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHh--CCCccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~-~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~L--nG~~~~Gr~I~V~~  648 (967)
                      ++..+|||+|||.. +|+++|.++|++||.|..|.+..+    +++|||+|.+.++|..|+..|  ++..+.|++|.|.+
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~----k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~   81 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHL   81 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc----ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEE
Confidence            45789999999986 889999999999999999999764    789999999999999999966  67899999999999


Q ss_pred             cccC
Q 002093          649 AVLD  652 (967)
Q Consensus       649 a~~~  652 (967)
                      |...
T Consensus        82 s~~~   85 (89)
T d1x4da1          82 SQKY   85 (89)
T ss_dssp             ECCC
T ss_pred             CCCc
Confidence            9643

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.23  E-value=3.1e-12  Score=115.58  Aligned_cols=74  Identities=28%  Similarity=0.356  Sum_probs=64.8

Q ss_pred             CCCCCEEEEeCCCCc-chHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH---ccCcee
Q 002093          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSF  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~-~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~---lng~~l  535 (967)
                      ....++|||+|||.. +|+++|.++|+.||            .|.++.+..++|||||+|.+.++|..|+.   +++..|
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~fG------------~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~   82 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG------------KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWF   82 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS------------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCS
T ss_pred             CCCCCEEEEeCCcCCccCHHHHHhhhcccc------------ceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCceE
Confidence            456789999999985 89999999999999            44566677789999999999999999996   788999


Q ss_pred             ecceeEEeCC
Q 002093          536 SGSILKIKRP  545 (967)
Q Consensus       536 ~Gr~l~V~rp  545 (967)
                      .|+.|+|...
T Consensus        83 ~gr~l~V~~s   92 (99)
T d1x4fa1          83 QGRCVKVDLS   92 (99)
T ss_dssp             SSSCCEEEEE
T ss_pred             CCEEEEEEEc
Confidence            9999999854

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.23  E-value=5.5e-12  Score=113.94  Aligned_cols=77  Identities=16%  Similarity=0.187  Sum_probs=69.1

Q ss_pred             CCCceEEEcCCCcc-cCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHH--HhCCCccCCeEEEEEE
Q 002093          572 DSPHKIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIA--GLNGLKVGGQVLTAVQ  648 (967)
Q Consensus       572 ~~~~~L~V~nLp~~-~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~--~LnG~~~~Gr~I~V~~  648 (967)
                      ...++|||+|||.. +|+++|.++|++||.|..|.+..+    +|+|||+|.+.++|..|++  .+++..|+|+.|.|.+
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~----k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~   91 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM----KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDL   91 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT----TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec----CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEE
Confidence            34678999999974 899999999999999999999764    7999999999999999997  5789999999999999


Q ss_pred             cccC
Q 002093          649 AVLD  652 (967)
Q Consensus       649 a~~~  652 (967)
                      +...
T Consensus        92 s~~~   95 (99)
T d1x4fa1          92 SEKY   95 (99)
T ss_dssp             ECSC
T ss_pred             cCCc
Confidence            8543

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.21  E-value=9.2e-12  Score=110.18  Aligned_cols=75  Identities=19%  Similarity=0.239  Sum_probs=65.8

Q ss_pred             CCCCCEEEEeCCCCc-chHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-c--cCcee
Q 002093          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSF  535 (967)
Q Consensus       460 ~~~~r~LyVgNLp~~-~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-l--ng~~l  535 (967)
                      ..++++|||+|||.. +|++||.++|++||            .|.++.+...++||||+|.+.++|..|+. |  ++..+
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG------------~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~   72 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFG------------VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALV   72 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGS------------CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhC------------CeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCcc
Confidence            356789999999986 89999999999999            55677777889999999999999999998 5  67899


Q ss_pred             ecceeEEeCCC
Q 002093          536 SGSILKIKRPK  546 (967)
Q Consensus       536 ~Gr~l~V~rp~  546 (967)
                      .|++|+|.+.+
T Consensus        73 ~gr~l~V~~s~   83 (89)
T d1x4da1          73 FGKPVRVHLSQ   83 (89)
T ss_dssp             TTEECEEEEEC
T ss_pred             CCceEEEEECC
Confidence            99999998543

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=5.1e-12  Score=115.91  Aligned_cols=73  Identities=23%  Similarity=0.266  Sum_probs=60.2

Q ss_pred             CCCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee--ecc
Q 002093          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF--SGS  538 (967)
Q Consensus       462 ~~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l--~Gr  538 (967)
                      +..+|||+|||+.+|+++|+++|++||.+..          +.+....++|||||+|.+.++|..||. |||..|  .|+
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~----------~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~   75 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLK----------IITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACC   75 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEE----------EEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCC
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEE----------EEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCc
Confidence            4458999999999999999999999995322          122234578999999999999999999 999888  467


Q ss_pred             eeEEeC
Q 002093          539 ILKIKR  544 (967)
Q Consensus       539 ~l~V~r  544 (967)
                      .|+|.+
T Consensus        76 ~l~v~~   81 (108)
T d2adba1          76 TLRIDF   81 (108)
T ss_dssp             CCEEEE
T ss_pred             EEEEEe
Confidence            788864

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.18  E-value=7e-13  Score=117.65  Aligned_cols=75  Identities=20%  Similarity=0.332  Sum_probs=64.8

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEee-----c--CCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEE
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV-----N--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  647 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~-----d--~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~  647 (967)
                      ++|||+|||..+|+++|+++|+.||.|..+.+..     +  .+.++|||||+|.+.++|.+|++ |||..|.|+.|.|.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEEC
Confidence            6899999999999999999999999887655432     1  23469999999999999999995 99999999999997


Q ss_pred             Ecc
Q 002093          648 QAV  650 (967)
Q Consensus       648 ~a~  650 (967)
                      ++.
T Consensus        81 r~k   83 (90)
T d1u2fa_          81 RPH   83 (90)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            654

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=4.7e-12  Score=117.02  Aligned_cols=79  Identities=9%  Similarity=0.182  Sum_probs=68.0

Q ss_pred             CCCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEee--cCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          572 DSPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV--NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       572 ~~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~--d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ...++|||+|||+.+|+++|+++|+.||.+..+.++.  ..+.++|||||+|.+.++|.+|+. |||..|+|+.|.|..+
T Consensus        16 ~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~   94 (112)
T d1wela1          16 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI   94 (112)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEc
Confidence            3567999999999999999999999999986643333  245569999999999999999996 9999999999999887


Q ss_pred             cc
Q 002093          650 VL  651 (967)
Q Consensus       650 ~~  651 (967)
                      .+
T Consensus        95 ~~   96 (112)
T d1wela1          95 TK   96 (112)
T ss_dssp             CH
T ss_pred             Ch
Confidence            54

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.16  E-value=2.3e-11  Score=110.77  Aligned_cols=73  Identities=11%  Similarity=0.008  Sum_probs=63.4

Q ss_pred             CCCCEEEEeCCCCcc-h----HHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCce
Q 002093          461 RPMRRLCVENLPLSA-S----EKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (967)
Q Consensus       461 ~~~r~LyVgNLp~~~-T----eedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~  534 (967)
                      ....+|||+||+..+ +    .++|.++|+.||            .|+++.+.++++||||+|.+.++|..|+. |||..
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G------------~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~lng~~   70 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYD------------KDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTE   70 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC------------SSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccc------------cceEEEEecCCCEEEEEECCHHHHHHHHHHhcccc
Confidence            345689999999986 3    356888999998            45677777899999999999999999999 99999


Q ss_pred             eecceeEEeCC
Q 002093          535 FSGSILKIKRP  545 (967)
Q Consensus       535 l~Gr~l~V~rp  545 (967)
                      |.|++|+|.+.
T Consensus        71 ~~g~~l~v~~a   81 (104)
T d1weya_          71 FLGKEMKLYFA   81 (104)
T ss_dssp             ETTEECEEECC
T ss_pred             cCCCEeEEeec
Confidence            99999999864

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=3.8e-11  Score=109.30  Aligned_cols=62  Identities=15%  Similarity=0.040  Sum_probs=57.7

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEe
Q 002093          706 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  767 (967)
Q Consensus       706 eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~  767 (967)
                      ++|+++|++||.|++|.|+++.+|..+|||||+|.+.++|.+|++.|||+.|+|+.+.+..+
T Consensus        42 d~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          42 EVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            45788899999999999999999999999999999999999999999999999999988653

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=6e-12  Score=114.72  Aligned_cols=75  Identities=16%  Similarity=0.182  Sum_probs=68.4

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecC-CCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  649 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~-~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a  649 (967)
                      ..++|.+++..+++++|+++|++||.|..|.|+++. +.++|||||+|.+.++|.+|+..|||++|+|++|.|.++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            357788888899999999999999999999998763 456999999999999999999999999999999999875

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.05  E-value=2e-10  Score=99.47  Aligned_cols=69  Identities=19%  Similarity=0.225  Sum_probs=60.2

Q ss_pred             CCEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccCceeecce-eE
Q 002093          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI-LK  541 (967)
Q Consensus       463 ~r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng~~l~Gr~-l~  541 (967)
                      .+.|+|+|||+++|++.| .+|++||            .|+++.++.++|||||+|.+.++|.+||.+||..|.|+. |.
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G------------~I~~~~~~~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vg   70 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYG------------NILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGESIMIG   70 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTS------------CEEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTTEECE
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhh------------hhheEEecCCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEE
Confidence            357999999999997655 5899999            567888889999999999999999999999999999985 55


Q ss_pred             EeC
Q 002093          542 IKR  544 (967)
Q Consensus       542 V~r  544 (967)
                      |.+
T Consensus        71 V~~   73 (81)
T d1wwha1          71 VKP   73 (81)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.9e-10  Score=104.01  Aligned_cols=72  Identities=21%  Similarity=0.218  Sum_probs=59.8

Q ss_pred             CCCCCEEEEeC--CCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHH-ccCcee-
Q 002093          460 NRPMRRLCVEN--LPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-  535 (967)
Q Consensus       460 ~~~~r~LyVgN--Lp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~-lng~~l-  535 (967)
                      ..+.++|||+|  ||+.+|+++|+++|++||            .|..+.+..+++||||+|.+.++|..|+. |||..+ 
T Consensus        15 ~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G------------~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i~   82 (101)
T d2cq2a1          15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCG------------LVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (101)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHS------------CEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCCCceEEEECCCCCCCCCHHHHHHHHHhhC------------cccEEeeccCccEEEEEECCHHHHHHHHHHhCCCCCC
Confidence            45677899955  999999999999999999            45566677789999999999999999999 999876 


Q ss_pred             ecceeEEe
Q 002093          536 SGSILKIK  543 (967)
Q Consensus       536 ~Gr~l~V~  543 (967)
                      .+..+.|.
T Consensus        83 ~~~~~~i~   90 (101)
T d2cq2a1          83 DDLGQKIT   90 (101)
T ss_dssp             CTTSCEEE
T ss_pred             CCCCcEEE
Confidence            34444443

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=1.8e-10  Score=104.13  Aligned_cols=71  Identities=23%  Similarity=0.374  Sum_probs=61.4

Q ss_pred             CCCceEEEc--CCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCcc---CCeEEEE
Q 002093          572 DSPHKIFIG--GISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLTA  646 (967)
Q Consensus       572 ~~~~~L~V~--nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~---~Gr~I~V  646 (967)
                      .+..+|+|.  |||..+|+++|+++|++||.|..|.+..+    +|||||+|.+.++|.+|+..|||..+   .+..|.+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~----k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~~   91 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN----KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL   91 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT----CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEEC
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC----ccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEEE
Confidence            356788885  59999999999999999999999988764    78999999999999999999999887   3455554

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=1.8e-10  Score=106.35  Aligned_cols=75  Identities=12%  Similarity=0.052  Sum_probs=65.2

Q ss_pred             CCceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCc-chHHHHHHHhCCCccCCeEEEEEEccc
Q 002093          573 SPHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ-LVTPKAIAGLNGLKVGGQVLTAVQAVL  651 (967)
Q Consensus       573 ~~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~-e~A~~Al~~LnG~~~~Gr~I~V~~a~~  651 (967)
                      ..-.+||+|||..+|+++|+++|++||.|.+|.|+++    +|||||.|.+. ++|..|+..|+|..+.++.+.|.++.+
T Consensus        10 g~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~----kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~   85 (113)
T d1owxa_          10 GCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   85 (113)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             CCeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC----CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeec
Confidence            3446799999999999999999999999999999764    89999999997 678899999999988877777766643

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=4.8e-10  Score=100.89  Aligned_cols=77  Identities=17%  Similarity=0.180  Sum_probs=66.2

Q ss_pred             CCceEEEcCC--Cccc---------CHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCC
Q 002093          573 SPHKIFIGGI--SRTL---------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG  641 (967)
Q Consensus       573 ~~~~L~V~nL--p~~~---------teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~G  641 (967)
                      ...+|+|.||  |..+         ..++|++.|++||.|..|.+..+  ..+|+|||+|.+.++|.+|+..|||.+|+|
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~g   84 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFGG   84 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEETT
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEECC
Confidence            4678999998  5432         23689999999999999988654  358999999999999999999999999999


Q ss_pred             eEEEEEEccc
Q 002093          642 QVLTAVQAVL  651 (967)
Q Consensus       642 r~I~V~~a~~  651 (967)
                      +.|.|.++.+
T Consensus        85 r~i~v~~~~g   94 (99)
T d2dita1          85 RQITAQAWDG   94 (99)
T ss_dssp             EECEEEECCS
T ss_pred             EEEEEEEeCC
Confidence            9999999854

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.90  E-value=1.1e-09  Score=94.81  Aligned_cols=71  Identities=14%  Similarity=0.217  Sum_probs=60.9

Q ss_pred             CceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeE-EEEEEcc
Q 002093          574 PHKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-LTAVQAV  650 (967)
Q Consensus       574 ~~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~-I~V~~a~  650 (967)
                      .+.|+|+|+|+.++++.| +.|++||.|.++.+..    .+|||||+|.+.++|.+||+ |||..|+|+. |.|.++.
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~----~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~~   75 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSN----TGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCI   75 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECS----SSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecC----CCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeCC
Confidence            357999999999986555 5799999999998754    48999999999999999996 9999999985 5687764

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

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=5.2e-10  Score=103.15  Aligned_cols=68  Identities=9%  Similarity=-0.016  Sum_probs=58.4

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCH-HHHHHHHH-ccCceeecceeE
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA-EDASAALC-CDGCSFSGSILK  541 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~-e~A~~Al~-lng~~l~Gr~l~  541 (967)
                      ..+||||||+.+|+++|+++|++||            +|..+.+...+|||||.|.+. ++|..|+. ||+..+.++.+.
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG------------~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~   79 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHG------------EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKE   79 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSC------------CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSS
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcC------------ChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceE
Confidence            3569999999999999999999999            556666677899999999995 67888888 999888877766


Q ss_pred             Ee
Q 002093          542 IK  543 (967)
Q Consensus       542 V~  543 (967)
                      |.
T Consensus        80 v~   81 (113)
T d1owxa_          80 VT   81 (113)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.94  E-value=0.0072  Score=48.81  Aligned_cols=62  Identities=15%  Similarity=0.205  Sum_probs=52.9

Q ss_pred             HHHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          588 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       588 eedL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+.|...|.++|.|..+.|..-. ...-.|-|...+..+|.-|+..|+-++|+++.|.|.++.
T Consensus        10 qq~L~~~f~~h~~V~sv~l~~~~-dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          10 QQLLQEAFARHGKVKSVELSPHT-DYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHSCEEEEEECSCC-STTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHhheeEEEEEEEecc-CCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            34577889999999999885542 135689999999999999999999999999999999873

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.56  E-value=0.012  Score=49.90  Aligned_cols=55  Identities=13%  Similarity=0.328  Sum_probs=48.5

Q ss_pred             HHHHHHHHhcCCeeEEEEeecCCCCCCEEEEeecCcchHHHHHHHhCCCccCCeEEEEEEcc
Q 002093          589 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  650 (967)
Q Consensus       589 edL~e~Fsk~G~V~~v~l~~d~~~skG~aFVeF~~~e~A~~Al~~LnG~~~~Gr~I~V~~a~  650 (967)
                      .+|.+.|..||.|.-|+++.+      ..+|.|.+-.+|-+|+. |+|.++.|+.|.|.-..
T Consensus        39 ~~Llq~l~~~GeViLvRFv~d------~mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~~~   93 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQG------QMLVTFADSHSALSVLD-VDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETT------EEEEECSCSHHHHHHHH-GGGSEETTEEEEEECCC
T ss_pred             HHHHHHHhhCCeEEEEEEeCC------eEEEEECCcHHHHHHhc-cCCeEEcceEEEEecCC
Confidence            468888999999999998755      79999999999999996 99999999999996543

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.10  E-value=0.029  Score=45.19  Aligned_cols=64  Identities=20%  Similarity=0.171  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhcCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCcceeEEee
Q 002093          703 EVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  768 (967)
Q Consensus       703 ei~eDIr~~f~kFG~V~~V~I~r~~~g~~~G~gFVeF~~~e~A~~Ai~~LnG~~~~~r~~~v~~~~  768 (967)
                      ++.+-|...|.++|.|.+|.|.....|..  .|-|.-.+.++|.-|+..|+-+.|+.+-+.|..++
T Consensus         8 elqq~L~~~f~~h~~V~sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1           8 ELQQLLQEAFARHGKVKSVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHHHSCEEEEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHHHhheeEEEEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            44555778899999999999987766654  37799999999999999999999999999887654

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.029  Score=47.42  Aligned_cols=69  Identities=23%  Similarity=0.228  Sum_probs=48.1

Q ss_pred             CCCEEEEeCCCCcchH---------HHHHHHHHHhhhhcCcccccCCcCeeeeeecCCCcEEEEEEcCHHHHHHHHHccC
Q 002093          462 PMRRLCVENLPLSASE---------KALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDG  532 (967)
Q Consensus       462 ~~r~LyVgNLp~~~Te---------edL~~~F~~fG~~~g~~~v~~~~~v~~~~~~~skG~aFVeF~~~e~A~~Al~lng  532 (967)
                      +.-||.|.=..+...+         .+|.+.|..||++.-         |.-     -.+...|+|.+-++|-+|+.++|
T Consensus        14 pDgTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViL---------vRF-----v~d~mwVTF~dG~SAL~al~l~g   79 (95)
T d1ufwa_          14 LDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVL---------VRI-----NQGQMLVTFADSHSALSVLDVDG   79 (95)
T ss_dssp             TTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSE---------EEE-----ETTEEEEECSCSHHHHHHHHGGG
T ss_pred             CCcEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEE---------EEE-----eCCeEEEEECCcHHHHHHhccCC
Confidence            3447777544433322         356667777774111         111     14568999999999999999999


Q ss_pred             ceeecceeEEeC
Q 002093          533 CSFSGSILKIKR  544 (967)
Q Consensus       533 ~~l~Gr~l~V~r  544 (967)
                      ..+.|+.|+|.-
T Consensus        80 ~~v~G~~l~It~   91 (95)
T d1ufwa_          80 MKVKGRAVKISG   91 (95)
T ss_dssp             SEETTEEEEEEC
T ss_pred             eEEcceEEEEec
Confidence            999999999984

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.032  Score=47.69  Aligned_cols=65  Identities=17%  Similarity=0.187  Sum_probs=55.6

Q ss_pred             ceEEEcCCCcccCHHHHHHHHHhcCCeeEEEEeecCCCC----CCEEEEeecCcchHHHHHHHhCCCcc
Q 002093          575 HKIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQLVTPKAIAGLNGLKV  639 (967)
Q Consensus       575 ~~L~V~nLp~~~teedL~e~Fsk~G~V~~v~l~~d~~~s----kG~aFVeF~~~e~A~~Al~~LnG~~~  639 (967)
                      ++|.|..||+.+|++++.+.+...|.+..+.....+.+.    -.-|||.|.+.++...-...++|..|
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F   70 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            579999999999999999999998888877776653322    35899999999999999999999887

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.41  E-value=0.032  Score=47.71  Aligned_cols=69  Identities=17%  Similarity=0.256  Sum_probs=48.3

Q ss_pred             CEEEEeCCCCcchHHHHHHHHHHhhhhcCcccccCCcCeeeeeec-CCCcEEEEEEcCHHHHHHHHH-ccCceeec
Q 002093          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (967)
Q Consensus       464 r~LyVgNLp~~~TeedL~~~F~~fG~~~g~~~v~~~~~v~~~~~~-~skG~aFVeF~~~e~A~~Al~-lng~~l~G  537 (967)
                      .+|.|+.||+++||+++.+.+...|...-+..+.+.     ...+ ..-..|||.|.+.++...... ++|..|.+
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk-----~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSND-----TSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESC-----CSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCC-----cCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            479999999999999999988655432111111110     0111 122469999999999999999 99998855