Citrus Sinensis ID: 002280

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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---
Protein Sequence
MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVSDDHKSGRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Secondary Structure (PSIPRED)
ccccccHHHcccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccHHHHHHcccccccccccccHHHccccccccccccccccccccccccccccccccccccccccHHHcccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccEEEEEcccccccHHHHHHHHHHHHHHcccccccccccEEEEEEEccccEEEEEEccHHHHHHHHHccccEEEcccEEEEcccccccHHHHHccccccccHHHHHHHHHHcccccEEEEEccccccccEEEEEEcccccHHHHHHccccccccccEEEEEEEccccccccccccccccccccccccccccccEEEEEEccccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEccccccccccHHcccccccccccccccEEEEcccHHHHHHHHHHHccccccccEEEEccccHHHHHHHccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEcHHHHHHHHHHHHcccccccEEEEEEccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccHHcccccccEccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEccccccccccEEccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccHcccccccccHHHcccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccHHHHHHHHHHHHHHcccccccccccEEEEEEEccccEEEEEEccHHHHHHHHHcccEEEcccEEEEEcccccccccEEEccccccccHHHHHHHHHHHccccEEEEcccccccccEEEEEEEcHHHHHHHHHHHccccccccEEEEEEEEcccccccccccccccccccccccccccccEEEEEEccccHHHHHcccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccccEcccccHHHcccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccHHcEEEcccccccccccccccHcccccccHcccccccccccccccccccccccccccccHEEcccEEEEEEccHHHHHHHHHHHccccccccEEEEEEccHHHHHHcccc
Coil and Loop (DISEMBL)
mgrsgrkkekhgkrgepsladsnegsaartrpfsfdeIMIRRKTKNLSENIKEdamdvsnipgdctienvsddhksgrhhghkkspgvdvhtseeyvkvgsgkkednaltknvdssrqrdgenrdLETKLKEDYVAKsnhrrtlkseirlkdrspgnekdrgnrgsdtklkadvtketsskpnvkseklipsqgrshnqsivdsrdeatkkhsrdltgkdrhadksgeksERESKrkhrnrddeknrdksaakkvdlgkghdlkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslspraqkrtsyydreheglpshstkissgrqhsdidssrvtgnglsghyrrhdgstsglggysprkrrteaaaktpspinrspekksakwdvapvetysvpsnvhtsnqaassnahemvssdpvtsttqkplagiSVSASLAKLNVSMdsvqltqsnrpmrrlcvenlplsASEKALMEFLNNFLLssgvqhvhgslpcigcviQREKGQAFVEFLTaedasaalccdgcsfsgsilkikrpkEFVEVAIFIGGISRTLSSKMVMEIVCAFgplkayhfevnedheepcaFIEYVDQLvtpkaiaglnglkvGGQVLTAVQAVLdgsimdnsgnppfhgipkhalpllkkptevlklknvfnpegfsslselEVEEVLEDVRLECarfgsvksvnvvkygdsnistiqacegnentasagvgqnltndetnekgerleevtdhksiknneLEILNDSkevmeagevnnvkdnrpasgtmgdepsqlcelDTDMAVEYqardstseivsqgvptqvntlkdspcahddkvtCNIQLEHMseenkssakedlnleevngnseaftgasnemgmqssavengdnenqdpnqghifepgCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVeyiplnlyrarfsk
Flexible Loop (DISEMBL)
mgrsgrkkekhgkrgepsladsnegsaartrpfsfdeimirRKTKNLSENIKEdamdvsnipgDCTIENVSDdhksgrhhghkkspgvdvhtSEEYVKvgsgkkednaltknvdssrqrdgenrdletklkedyvaksnhrrtlkseirlkdrspgnekdrgnrgsdtklkadvtketsskpnvkseklipsqgrshnqsivdsrdeatkkhsrdltgkdrhadksgeksereskrkhrnrddeknrdksaakkvdlgkghdlkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslspraqkrtsyydreheglpshstkissgrqhsdidssrvtgnglsghyrrhdgstsglggysprkrrteaaaktpspinrspekksakwdVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVqltqsnrpmrrLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSgsilkikrpkEFVEVAIFIGGisrtlsskMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVfnpegfsslselEVEEVLEDVRLEcarfgsvksvnvvkyGDSNISTIQACEGNentasagvgqnltndetnekgerleevtdhksiknneleilndskevmeagevnnvkdnrpasgtmgdepSQLCELDTDMAVEYQARDstseivsqgvptqvntlkdspcahDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYiplnlyrarfsk
Low Complexity Region (SEG)
MgrsgrkkekhgkrgEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVsddhksgrhhghkksPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLkvserkekkespksrhgnsrlkrrrsrsreredrnrrslslsPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFsslseleveevledvrleCARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Disordered region (IsUnstruct)
********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQAC***********************************************************************************************************************************************************************************HIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRA****
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPK**********GISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV*********************************VLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS*IQ*******TASAGVGQNLTNDETNEKGERL*******SIKNNELEILNDSKEV********************************************************************VTCNIQ*****************************************************QGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFS*
Disordered Region (DISEMBL)
****************************RTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVS********************TSEEYVKVGSGKKEDNA***************RDLETKLKEDYVAKSNHRRTLKSEIRLKDRS*******************************************************************************************************GKGHDLK****************************************************************************SRVTGNGLSGHYRRHD*************************************DVAPVETYSVPSNVH************************KPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHM*********EDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Disordered Region (DISPRO)
*************************SAARTRPFSFDEIMIRRKTKNLSENIKE**************************************************************************************************************************************************************************************************************************************************************************************************************************************************KWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS*********F***********KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTA*AG**Q*************************************************************************************************S***HDDKVTCNIQLEHMS**********************************************PNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRSGRKKEKHGKRGEPSLADSNEGSAARTRPFSFDEIMIRRKTKNLSENIKEDAMDVSNIPGDCTIENVSDDHKSGRHHGHKKSPGVDVHTSEEYVKVGSGKKEDNALTKNVDSSRQRDGENRDLETKLKEDYVAKSNHRRTLKSEIRLKDRSPGNEKDRGNRGSDTKLKADVTKETSSKPNVKSEKLIPSQGRSHNQSIVDSRDEATKKHSRDLTGKDRHADKSGEKSERESKRKHRNRDDEKNRDKSAAKKVDLGKGHDLKVSERKEKKESPKSRHGNSRLKRRRSRSREREDRNRRSLSLSPRAQKRTSYYDREHEGLPSHSTKISSGRQHSDIDSSRVTGNGLSGHYRRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK
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	943	2.2.26 [Sep-21-2011]
P90727	488	Splicing factor U2AF 65 k	N/A	no	0.300	0.579	0.301	6e-29
Q24562	416	Splicing factor U2AF 50 k	yes	no	0.299	0.677	0.273	4e-27
P26368	475	Splicing factor U2AF 65 k	yes	no	0.318	0.631	0.295	4e-26
P26369	475	Splicing factor U2AF 65 k	yes	no	0.319	0.633	0.290	4e-26
Q9ZR40	573	Splicing factor U2af larg	N/A	no	0.302	0.497	0.267	1e-19
Q9ZR39	555	Splicing factor U2af larg	N/A	no	0.302	0.513	0.250	2e-18
Q2QKB4	543	Splicing factor U2af larg	N/A	no	0.243	0.423	0.266	5e-16
Q8L716	589	Splicing factor U2af larg	no	no	0.257	0.412	0.262	6e-16
O23212	573	Splicing factor U2af larg	no	no	0.265	0.436	0.236	4e-15
Q2QKB3	591	Splicing factor U2af larg	N/A	no	0.176	0.280	0.282	9e-15

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

 Score =  130 bits (327), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 103/342 (30%), Positives = 166/342 (48%), Gaps = 59/342 (17%)

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 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF--------------- 548
            C I  +K  AF+EF + ++ +A +  DG +F G  LK++RP+++               
Sbjct: 214 LCQINLDKNFAFIEFRSIDETTAGMAFDGINFMGQQLKVRRPRDYQPSQNTFDMNARMPV 273

Query: 549 ----VEVA--IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQL 601
               V+ A  IFIGG+   L+   V E++C+FGPLKA+   V+ + + +  AF EY+D  
Sbjct: 274 SSIVVDSANKIFIGGLPNYLTEDQVKELLCSFGPLKAFSLNVDSQGNSKGYAFAEYLDPT 333

Query: 602 VTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP----PFHGIPKHALPLLKKPTEV 657
           +T +AIAGLNG+++G + L  VQ         N+  P       GI         + TE+
Sbjct: 334 LTDQAIAGLNGMQLGDKQLV-VQLACANQTRHNTHLPNSASAIAGIDLSQGA--GRATEI 390

Query: 658 LKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
           L L N+   +     S+ + EE+LEDVR EC+++G V+S+ +
Sbjct: 391 LCLMNMVTEDELR--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|Q24562|U2AF2_DROME Splicing factor U2AF 50 kDa subunit OS=Drosophila melanogaster GN=U2af50 PE=2 SV=1

 Score =  124 bits (311), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 96/351 (27%), Positives = 156/351 (44%), Gaps = 69/351 (19%)

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--------------- 552
             +K  AF+EF + ++ + A+  DG +  G  LKI+RP ++  +                
Sbjct: 136 NLDKNFAFLEFRSIDETTQAMAFDGINLKGQSLKIRRPHDYQPMPGITDTPAIKPAVVSS 195

Query: 553 -------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEY 597
                        IFIGG+   L+   V E++ +FG L+A++   +      +  AF EY
Sbjct: 196 GVISTVVPDSPHKIFIGGLPNYLNDDQVKELLLSFGKLRAFNLVKDAATGLSKGYAFCEY 255

Query: 598 VDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN---------PPFHGIPKHAL 648
           VD  +T ++IAGLNG+++G + L   +A +      N+ N         P    +     
Sbjct: 256 VDLSITDQSIAGLNGMQLGDKKLIVQRASVGAKNAQNAANTTQSVMLQVPGLSNVVTSG- 314

Query: 649 PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
                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 =  120 bits (302), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 106/359 (29%), Positives = 167/359 (46%), Gaps = 59/359 (16%)

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 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA----- 552
           G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +      
Sbjct: 183 GN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSEN 241

Query: 553 -------------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEP 591
                              +FIGG+   L+   V E++ +FGPLKA++   +      + 
Sbjct: 242 PSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG 301

Query: 592 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPP-----------F 640
            AF EYVD  VT +AIAGLNG+++G + L  VQ    G+      +PP            
Sbjct: 302 YAFCEYVDINVTDQAIAGLNGMQLGDKKLL-VQRASVGAKNATLVSPPSTINQTPVTLQV 360

Query: 641 HGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
            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 =  120 bits (302), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 104/358 (29%), Positives = 164/358 (45%), Gaps = 57/358 (15%)

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 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA----- 552
           G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++  +      
Sbjct: 183 GN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSEN 241

Query: 553 -------------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEP 591
                              +FIGG+   L+   V E++ +FGPLKA++   +      + 
Sbjct: 242 PSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKG 301

Query: 592 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLT----------AVQAVLDGSIMDNSGNPPFH 641
            AF EYVD  VT +AIAGLNG+++G + L           A    L  +I          
Sbjct: 302 YAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGAKNATLVSLPSTINQTPVTLQVP 361

Query: 642 GIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
           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|Q9ZR40|U2A2B_NICPL Splicing factor U2af large subunit B OS=Nicotiana plumbaginifolia GN=U2AF65B PE=2 SV=1

 Score = 99.0 bits (245), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 96/359 (26%), Positives = 154/359 (42%), Gaps = 74/359 (20%)

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----------------VEVA---- 552
            AFVE  + E+AS A+  DG  F G+  K++RP ++                + +A    
Sbjct: 288 FAFVEMRSVEEASNAMALDGIIFEGAPCKVRRPSDYNPSLAATLGPSQPNPNLNLAAVGL 347

Query: 553 -------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFI 595
                        IF+GG+    +   + E++ +FGPL+   F++ +D E    +  AF 
Sbjct: 348 SPGSAGGLEGPDRIFVGGLPYYFTEAQIRELLESFGPLRG--FDLVKDRETGNSKGYAFC 405

Query: 596 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN----PPFHGIPKHALP-- 649
            Y D  VT  A A LNG+K+G + LT  +A        N G     P    +  HA    
Sbjct: 406 VYQDVSVTDIACAALNGIKMGDKTLTVRRA--------NQGTTQPKPEQESVLLHAQQQI 457

Query: 650 ----LLKKP----TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVV 700
               L+ +P    T+VL L  V + +  +   + + +++LED+R EC +FGS+  VNVV
Sbjct: 458 ALQRLMLQPATLATKVLSLTEVISADELN--DDEDYQDILEDMRTECGKFGSL--VNVV 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 = 95.5 bits (236), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 90/359 (25%), Positives = 155/359 (43%), Gaps = 74/359 (20%)

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----------------VEVA---- 552
            AFVE  + E+AS A+  DG  F G  +K++RP ++                + +A    
Sbjct: 270 FAFVEMRSVEEASNAMALDGVIFEGGPVKVRRPSDYNPSLAATLGPSQPSPNLNLAAVGS 329

Query: 553 -------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFI 595
                        IF+GG+    +   + E++ +FG L+   F++ +D E    +  AF 
Sbjct: 330 TPGSSGGLEGPDRIFVGGLPYYFTESQIRELLESFGQLRG--FDLVKDRETGNSKGYAFC 387

Query: 596 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPT 655
            Y D  VT  A A LNG+K+G + LT V+    G+   N         P+    LL    
Sbjct: 388 VYQDVSVTDIACAALNGIKMGDKTLT-VRRANQGTTQPN---------PEQESVLLHAQQ 437

Query: 656 EVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRLECARFGSVKSVNVV 700
           ++   + +  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 = 87.4 bits (215), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 78/293 (26%), Positives = 130/293 (44%), Gaps = 63/293 (21%)

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

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKEF----------------VEVA--------- 552
             + E+AS A+  DG  F G+ +K++RP ++                + +A         
Sbjct: 261 MRSVEEASNAMALDGILFEGAPVKVRRPTDYNPSLAAALGPSQPSSNLNLAAVGLTPGSA 320

Query: 553 --------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQ 600
                   IF+GG+    +   V E++ +FGPL+   F++ +D E    +  AF  Y D 
Sbjct: 321 GGLEGPDRIFVGGLPYYFTEAQVRELLESFGPLRG--FDLVKDRETGNSKGYAFCVYQDL 378

Query: 601 LVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN----PPFHGI----------PKH 646
            VT  A A LNG+K+G + LT  +A        N G+    P    I           K 
Sbjct: 379 NVTDIACAALNGIKMGDKTLTVRRA--------NQGSAQPRPEQENILLQAQQQVQLQKL 430

Query: 647 ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
              +   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 = 87.0 bits (214), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 81/308 (26%), Positives = 134/308 (43%), Gaps = 65/308 (21%)

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

Query: 504 GCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF--------------- 548
              I  EK  AFVE  + E+AS A+  DG    G  +K++RP ++               
Sbjct: 295 NVYINHEKKFAFVEMRSVEEASNAMALDGIILEGVPVKVRRPTDYNPSLAATLGPSQPNP 354

Query: 549 ------VEVA------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE- 589
                 V ++            IF+GG+    +   + E++ +FGPL+   F + +D E 
Sbjct: 355 NLNLGAVGLSSGSTGGLEGPDRIFVGGLPYYFTEVQIRELLESFGPLRG--FNLVKDRET 412

Query: 590 ---EPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKH 646
              +  AF  Y D  VT  A A LNG+K+G + LT V+  + G+I            P+ 
Sbjct: 413 GNSKGYAFCVYQDPSVTDIACAALNGIKMGDKTLT-VRRAIQGAIQPK---------PEQ 462

Query: 647 ALPLLKKPTEVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRLECARFG 692
              LL    ++   + +F P G  +    L+++          E  E++ED+R E  +FG
Sbjct: 463 EEVLLYAQQQIALQRLMFQPGGTPTKIVCLTQVVTADDLRDDEEYAEIMEDMRQEGGKFG 522

Query: 693 SVKSVNVV 700
           ++  VNVV
Sbjct: 523 NL--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 = 84.3 bits (207), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 74/313 (23%), Positives = 135/313 (43%), Gaps = 63/313 (20%)

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

Query: 498 GSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF--------- 548
                +   I  EK  AFVE  + E+AS A+  DG  F G+ +K++RP ++         
Sbjct: 273 PGDAVVNVYINHEKKFAFVEMRSVEEASNAMSLDGIIFEGAPVKVRRPSDYNPSLAATLG 332

Query: 549 -------VEVA-----------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV 584
                  + +A                 IF+GG+    +   V E++ +FG LK   F++
Sbjct: 333 PSQPSPHLNLAAVGLTPGASGGLEGPDRIFVGGLPYYFTESQVRELLESFGGLKG--FDL 390

Query: 585 NEDHE----EPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPF 640
            +D E    +  AF  Y D  VT  A A LNG+K+G + LT V+    G+++        
Sbjct: 391 VKDRETGNSKGYAFCVYQDLSVTDIACAALNGIKMGDKTLT-VRRANQGTMLQK------ 443

Query: 641 HGIPKHALPLLKKPTEVLKLKNVFNPEGFSS----LSEL----------EVEEVLEDVRL 686
              P+    LL    ++   + +  P   ++    L+++          E  +++ED+R 
Sbjct: 444 ---PEQENVLLHAQQQIAFQRVMLQPGAVATTVVCLTQVVTEDELRDDEEYGDIMEDMRQ 500

Query: 687 ECARFGSVKSVNV 699
           E  +FG++ +V +
Sbjct: 501 EGGKFGALTNVVI 513

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q2QKB3|U2A2A_WHEAT Splicing factor U2af large subunit A OS=Triticum aestivum GN=U2AF65A PE=2 SV=1

 Score = 83.2 bits (204), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 58/205 (28%), Positives = 93/205 (45%), Gaps = 39/205 (19%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           Q+ R  RR+ V  LP  A+E+ +  F N  + + G          +   I  +K  AFVE
Sbjct: 266 QATRHARRVYVGGLPPIANEQTVAVFFNQVMAAIGGNTFALGHAVVNVYINHDKKFAFVE 325

Query: 518 FLTAEDASAALCCDGCSFSGSILKIKRPKEF----------------VEVA--------- 552
             + E+AS A+  DG  F G+ +K++RP ++                + +A         
Sbjct: 326 MRSVEEASNAMALDGIMFEGAPVKVRRPTDYNPSQAAALGPSQPNPNLNLAAVGLTPGAG 385

Query: 553 --------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQ 600
                   IF+GG+    +   V E++  FGPL+   F++ +D E    +  AF  Y D 
Sbjct: 386 GGLEGPDRIFVGGLPYYFTEAQVRELLETFGPLRG--FDIVKDKETGNSKGYAFCLYKDG 443

Query: 601 LVTPKAIAGLNGLKVGGQVLTAVQA 625
            VT  A A LNG+++G + LT  +A
Sbjct: 444 TVTDIACAALNGIQLGDRTLTVRRA 468

Necessary for the splicing of pre-mRNA.

Triticum aestivum (taxid: 4565)

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	943
359477752	895	PREDICTED: uncharacterized protein LOC10	0.927	0.977	0.489	0.0
118489922	787	unknown [Populus trichocarpa x Populus d	0.753	0.903	0.550	0.0
255575831	844	splicing factor u2af large subunit, puta	0.798	0.892	0.502	0.0
296083697	882	unnamed protein product [Vitis vinifera]	0.854	0.913	0.448	0.0
449458894	910	PREDICTED: uncharacterized protein LOC10	0.921	0.954	0.394	1e-153
449498643	918	PREDICTED: uncharacterized LOC101213128	0.921	0.946	0.392	1e-152
356536627	735	PREDICTED: uncharacterized protein LOC10	0.741	0.951	0.439	1e-142
147852616	544	hypothetical protein VITISV_009755 [Viti	0.557	0.966	0.512	1e-127
218192051	1128	hypothetical protein OsI_09930 [Oryza sa	0.925	0.773	0.361	1e-119
108706080	964	RNA recognition motif family protein, ex	0.925	0.905	0.361	1e-117

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

 Score =  763 bits (1971), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/963 (48%), Positives = 604/963 (62%), Gaps = 88/963 (9%)

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 LCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED 587
           L  DG SFSGSILKI+RPK+F                  +MEI  AFGPLKAY F+VNED
Sbjct: 504 LSFDGISFSGSILKIRRPKDF------------------LMEIAAAFGPLKAYRFQVNED 545

Query: 588 HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHA 647
             EPCAF+EYVDQ VT KA AGLNG+K+GGQVLT VQA+ +   M+N+GN PF+GIP+HA
Sbjct: 546 LGEPCAFLEYVDQSVTLKACAGLNGMKLGGQVLTVVQAIPNALAMENTGNLPFYGIPEHA 605

Query: 648 LPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNI 707
            PLL++PT+VLKLKNV NP+  SSLSE E+EE+LED+RLEC RFG+VKSVN+VKY +S++
Sbjct: 606 KPLLERPTQVLKLKNVVNPDDLSSLSEAELEEILEDIRLECTRFGTVKSVNIVKYNNSHV 665

Query: 708 STIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAG 767
           ST++  E  +NT     G NL  D  + K E L   TD+ S   + ++   D K++ E  
Sbjct: 666 STLEVYEAADNT-----GSNLGCDGNSMKAETLGGGTDNGSSDISGIKPPTDVKDLKEVD 720

Query: 768 EV---NNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDS 824
           EV   N++ D++  +  + +E  +   +D++ AV+       S+ + +G+P Q+N +K  
Sbjct: 721 EVVERNSISDDKSLTDLIKNELCEPSHIDSNTAVKEPGCPDGSDDIPRGLPDQLNNMKHE 780

Query: 825 PCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEM----GMQSSAVE 880
               +DK    IQ + + +    + +E+ N            G S E+    G++S    
Sbjct: 781 VELRNDKAADVIQEDFIIKNKLMTVEEETN--------RKLLGTSAELDSSPGIKSDFTG 832

Query: 881 NGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 940
             D+E    +   +FE GCV VEY R EASCMAAH LH R FDDR+V V Y+ L+LYR +
Sbjct: 833 KNDSEKGLCDLDDMFEVGCVLVEYGRTEASCMAAHCLHGRYFDDRVVVVGYVALDLYRMK 892

Query: 941 FSK 943
           F +
Sbjct: 893 FPR 895

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  747 bits (1929), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 433/786 (55%), Positives = 533/786 (67%), Gaps = 75/786 (9%)

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 SLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA------ 552
           + PCI C+ Q+EKGQA VEFLT EDASAAL  DG SFSGSI+K++RPK+F+EVA      
Sbjct: 330 TQPCISCIRQKEKGQALVEFLTPEDASAALSFDGRSFSGSIIKVRRPKDFIEVATGELEK 389

Query: 553 ------------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAF 594
                             IFIGGIS+ LSSKM+MEI  AFGPLKAY FE  +D +EP AF
Sbjct: 390 SAAAIDAIGDIVKDSPHKIFIGGISKVLSSKMLMEIASAFGPLKAYQFENRKDPDEPFAF 449

Query: 595 IEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKP 654
           +EY D+ VT KA AGLNG+K+GGQV+TA+QAV + S   + GN  F  I +HA  LL+KP
Sbjct: 450 LEYADESVTFKACAGLNGMKLGGQVITAIQAVPNASSSGSDGNSQFGQISQHAKALLEKP 509

Query: 655 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACE 714
           TEVLKLKNVF+ E  SSLS  EVEEVLEDVRLECARFGSVKS+NV+KY    IST ++CE
Sbjct: 510 TEVLKLKNVFDSESLSSLSNTEVEEVLEDVRLECARFGSVKSINVIKYAAITISTSKSCE 569

Query: 715 GNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKD 774
            N++T SA   Q+L  D TN K   +    D K +                  E N++ D
Sbjct: 570 FNDDTVSAEATQSLGCDGTNPKTRNIRGSIDQKFM------------------EGNSIGD 611

Query: 775 NRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTC 834
           ++PAS  M DEP Q  ++D+DMAV+  A  S+S+  SQ  P  V+       ++ DKVT 
Sbjct: 612 DKPASDVMEDEPCQPGQVDSDMAVQDLACKSSSD--SQEPPQDVSD------SNVDKVTD 663

Query: 835 NIQLEHMSEENKSSAKED----------------LNLEEVNGNSE-AFTGASNEMGMQSS 877
           +I++E +  ENKS+A ED                LNLEEV+G+ E AF   S  M M+ +
Sbjct: 664 DIEIEEVDAENKSTAGEDLNLKEVGDNKLMAGEELNLEEVSGDVEKAFVNDS--MEMKPN 721

Query: 878 AVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLY 937
           ++E GD + QD + G IFE GCVFVE+ R E +CMAAH LH RLFDDR V VEY+PL++Y
Sbjct: 722 SIEKGDCKEQDCSLGLIFERGCVFVEFRRTEGACMAAHCLHGRLFDDRAVVVEYVPLDIY 781

Query: 938 RARFSK 943
            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|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 =  696 bits (1797), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/800 (50%), Positives = 524/800 (65%), Gaps = 47/800 (5%)

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

Query: 564 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV 623
              +MEI   FGPLKAYHFE  +D   PCAF+EY DQ VT +A AGLNG+K+GGQV++AV
Sbjct: 488 ---IMEIASTFGPLKAYHFENIDDVNGPCAFVEYADQSVTFRACAGLNGMKLGGQVISAV 544

Query: 624 QAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLED 683
           Q + + S ++  G  PF+G+P+ A PLL KPT+VLKLKN+F+PE   SLS +E+EEVLED
Sbjct: 545 QVIPNASTLEIDGKQPFYGVPEQAKPLLDKPTQVLKLKNLFDPETLPSLSRIEIEEVLED 604

Query: 684 VRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV 743
           VRLECARFG+VKSVNVV+ G   I T +AC+ NE+  SAG  QNL  DETN + E+    
Sbjct: 605 VRLECARFGTVKSVNVVRNGPIPIFTSEACKMNEDMDSAGPQQNLGGDETNAETEKTIGD 664

Query: 744 TDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMAVEYQAR 803
             H+ ++ N+    +D K V    E N V+D++PA   M DE SQL + D++MAVE  + 
Sbjct: 665 IHHEPVEAND---TDDDKPV----EGNGVEDDKPADDLMEDESSQLGQFDSNMAVENLSG 717

Query: 804 DSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSE 863
           D   E   + +P Q  +  +S C H  KVT ++Q++    E+K   +++L         E
Sbjct: 718 DGVPE-PQEPIPIQQTSKDESDCLH-GKVTDDVQMKDTIAEHKLPIQQELK--------E 767

Query: 864 AFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFD 923
           +FT   N+  ++S A   GD+E  + +  +IF P CVFVE+ R EASC+AAH LH RL+D
Sbjct: 768 SFT---NDHAVESDATGKGDHEEHNCDLSYIFYPSCVFVEFGRTEASCIAAHCLHGRLYD 824

Query: 924 DRIVAVEYIPLNLYRARFSK 943
            R V V YIPL++YR+RF K
Sbjct: 825 GRTVTVGYIPLDVYRSRFPK 844

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  692 bits (1785), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 430/958 (44%), Positives = 552/958 (57%), Gaps = 152/958 (15%)

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 INHVQGTPPCISCIIHKEKGQALVEFLTPEDASAALSFDGISFSGSILKIRRPKDFVDMT 491

Query: 553 -----------------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE 589
                                  IFIGGISR LSS M+MEI  AFGPLKAY F+VNED  
Sbjct: 492 GVQEKLVAAPDAISDIVKDSPHKIFIGGISRALSSDMLMEIAAAFGPLKAYRFQVNEDLG 551

Query: 590 EPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALP 649
           EPCAF+EYVDQ VT KA AGLNG+K+GGQVLT VQA+ +   M+N+GN PF+GIP+HA P
Sbjct: 552 EPCAFLEYVDQSVTLKACAGLNGMKLGGQVLTVVQAIPNALAMENTGNLPFYGIPEHAKP 611

Query: 650 LLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIST 709
           LL++PT+VLKLKNV NP+  SSLSE E+EE+LED+RLEC RFG+VKSVN+VKY +S++ST
Sbjct: 612 LLERPTQVLKLKNVVNPDDLSSLSEAELEEILEDIRLECTRFGTVKSVNIVKYNNSHVST 671

Query: 710 IQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEV 769
           ++  E  +NT     G NL  D  + K E L   TD+ SI               E  E 
Sbjct: 672 LEVYEAADNT-----GSNLGCDGNSMKAETLGGGTDNGSID--------------EVVER 712

Query: 770 NNVKDNRPASGTMGDEPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHD 829
           N++ D++  +  + +E  +   +D++ AV+       S+ + +G+P Q+N +K      +
Sbjct: 713 NSISDDKSLTDLIKNELCEPSHIDSNTAVKEPGCPDGSDDIPRGLPDQLNNMKHEVELRN 772

Query: 830 DKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEM----GMQSSAVENGDNE 885
           DK    IQ + + +    + +E+ N            G S E+    G++S      D+E
Sbjct: 773 DKAADVIQEDFIIKNKLMTVEEETN--------RKLLGTSAELDSSPGIKSDFTGKNDSE 824

Query: 886 NQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 943
               +   +FE GCV VEY R EASCMAAH LH R FDDR+V V Y+ L+LYR +F +
Sbjct: 825 KGLCDLDDMFEVGCVLVEYGRTEASCMAAHCLHGRYFDDRVVVVGYVALDLYRMKFPR 882

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  548 bits (1412), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 388/984 (39%), Positives = 538/984 (54%), Gaps = 115/984 (11%)

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 AFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCA 573
           A VEFLT EDASAAL  DG  FSGS LKI+RPK+++E                + ++V A
Sbjct: 513 ALVEFLTPEDASAALLFDGSDFSGSTLKIRRPKDYIET---------------LRDVVTA 557

Query: 574 FGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMD 633
           FG LKAYHFE+N+D   PCAF+EYVD+ V  KA AGLNG+K+GGQVL    AV    + +
Sbjct: 558 FGRLKAYHFEINDDLNGPCAFLEYVDESVVSKACAGLNGMKIGGQVLKVFPAV-PFPLTE 616

Query: 634 NSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS 693
            +G  P +GIP+H  PLL++P+ VLK+ NVFN +    LSE +++EVLED+R ECARFG+
Sbjct: 617 RTGCQPCYGIPEHVKPLLQRPSVVLKINNVFNADVLPVLSESDIDEVLEDIRFECARFGT 676

Query: 694 VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNE 753
           VKSVN VK        I A E  +  +      ++T  + + K E  E  T   S  +N+
Sbjct: 677 VKSVNFVK------PCISAEEEYKQIS------DIT--DVDIKHEIQENSTTVISRNSND 722

Query: 754 LEILNDSKEVMEAGEVNNVKDNRPASGTMGDEP--SQLCELDTDMAVEYQARDS------ 805
           LE  N + +   + + N  + N P +G   DE    +LC++    A  ++  D       
Sbjct: 723 LEDNNANLDNCPS-DSNQKQANCPDNGRHQDEAVEDKLCQMGNTDATCFEVADCENASER 781

Query: 806 TSEIVSQGVPTQVNTLKDSPCAH------DDKVTCNIQLEHMSEENKSSAKEDLNLEEVN 859
           T  ++S+   +  N  +D+          D K+ C         E  SS   D   + +N
Sbjct: 782 TGHVLSEQRSSPENDFQDAKVTEIIETGLDKKLVC--------VEASSSMMADNEKKSLN 833

Query: 860 GNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHR 919
           G       ASN       AVE  + ++ D NQ  +F  G VFVE+ R EASCMAAHSLH 
Sbjct: 834 GLDPVVRIASN-------AVEKSEKKDPDNNQESLFVLGSVFVEFGRIEASCMAAHSLHG 886

Query: 920 RLFDDRIVAVEYIPLNLYRARFSK 943
           R++D + +++EYIP  LYR RF K
Sbjct: 887 RIYDGQEISIEYIPHGLYRKRFPK 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 =  547 bits (1409), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 389/992 (39%), Positives = 541/992 (54%), Gaps = 123/992 (12%)

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

Query: 566 MVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA 625
            + ++V AFG LKAYHFE+N+D   PCAF+EYVD+ V  KA AGLNG+K+GGQVL    A
Sbjct: 559 -LRDVVTAFGRLKAYHFEINDDLNGPCAFLEYVDESVVSKACAGLNGMKIGGQVLKVFPA 617

Query: 626 VLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVR 685
           V    + + +G  P +GIP+H  PLL++P+ VLK+ NVFN +    LSE +++EVLED+R
Sbjct: 618 V-PFPLTERTGCQPCYGIPEHVKPLLQRPSVVLKINNVFNADVLPVLSESDIDEVLEDIR 676

Query: 686 LECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD 745
            ECARFG+VKSVN VK        I A E  +  +      ++T  + + K E  E  T 
Sbjct: 677 FECARFGTVKSVNFVK------PCISAEEEYKQIS------DIT--DVDIKHEIQENSTT 722

Query: 746 HKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEP--SQLCELDTDMAVEYQAR 803
             S  +N+LE  N + +   + + N  + N P +G   DE    +LC++    A  ++  
Sbjct: 723 VISRNSNDLEDNNANLDNCPS-DSNQKQANCPDNGRHQDEAVEDKLCQMGNTDATCFEVA 781

Query: 804 DS------TSEIVSQGVPTQVNTLKDSPCAH------DDKVTCNIQLEHMSEENKSSAKE 851
           D       T  ++S+   +  N  +D+          D K+ C         E  SS   
Sbjct: 782 DCENASERTGHVLSEQRSSPENDFQDAKVTEIIETGLDKKLVC--------VEASSSMMA 833

Query: 852 DLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYMRAEASC 911
           D   + +NG       ASN       AVE  + ++ D NQ  +F  G VFVE+ R EASC
Sbjct: 834 DNEKKSLNGLDPVVRIASN-------AVEKSEKKDPDNNQESLFVLGSVFVEFGRIEASC 886

Query: 912 MAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 943
           MAAHSLH R++D + +++EYIP  LYR RF K
Sbjct: 887 MAAHSLHGRIYDGQEISIEYIPHGLYRKRFPK 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 =  512 bits (1318), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 331/753 (43%), Positives = 453/753 (60%), Gaps = 54/753 (7%)

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 SLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGI 558
           + PCI C++ ++KGQA VEFLTA+DASAAL  DG    GSI+KI+RPK+++E        
Sbjct: 319 AQPCICCILHKDKGQALVEFLTADDASAALSFDGSMLFGSIVKIRRPKDYIE-------- 370

Query: 559 SRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ 618
                   +MEI   FG LKAYHFE   ++  PCAF+EYVD  VT KA AGLNG+K+GG+
Sbjct: 371 --------LMEIAGVFGSLKAYHFETKVNN-GPCAFLEYVDHSVTIKACAGLNGMKLGGE 421

Query: 619 VLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVE 678
           VLT +QA+ D S ++N+G    +G+P+HA PLL+KPT+VL++ NVF  +   SLS++ +E
Sbjct: 422 VLTVLQAMPDASPLENAGESLSYGVPEHAKPLLRKPTQVLEINNVFAADTILSLSDMAIE 481

Query: 679 EVLEDVRLECARFGSVKSVNVVKY--GDSNISTIQACEGNENTASAGVGQNLTNDETNEK 736
           E+L+DVRLECARFG++KS+NVVK+  G++  + ++ C+      +  V Q+ TN  TN  
Sbjct: 482 EILDDVRLECARFGTIKSINVVKHSSGENLATKLEECKVINKVDAKEVSQD-TNCITNNT 540

Query: 737 GERLEEVTDHKSIK-NNELEIL-NDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDT 794
                +   +   +  N +EI  N+  E ++  E + V  ++ A   + D  S    +D 
Sbjct: 541 ESSFSDKATYPDFEGTNGMEIHDNNEMEEVKVDEGSCVYVDKNAE--VFDYKSCREHVD- 597

Query: 795 DMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLN 854
           D AVE          + Q  P Q +T  D P  +D  V  +I               D+N
Sbjct: 598 DSAVEDVGDKGIPCSIIQECPDQQDTPNDGPEFYDKMVANDI---------------DVN 642

Query: 855 LE---EVNGNSEAFTGASNEMGMQSSAVENGDN-ENQDPNQGHIFEPGCVFVEYMRAEAS 910
           +E   E      AF    +E  + +  V    + + ++   GH+F+PG V VEY RAEA 
Sbjct: 643 IENNMESKDTVCAFQEGFSEWDISAELVSPQKSIDTEEDIYGHVFKPGSVLVEYGRAEAC 702

Query: 911 CMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 943
           C AAHSLH R FD RIV V Y+ L+LYR+RF+K
Sbjct: 703 CSAAHSLHGRFFDGRIVTVGYVALSLYRSRFTK 735

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  461 bits (1186), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 301/587 (51%), Positives = 373/587 (63%), Gaps = 61/587 (10%)

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 LCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAF 574
           L  DG SFSGSILKI+RPK+FV++ +           +M++ I   F
Sbjct: 504 LSFDGISFSGSILKIRRPKDFVDMVV-----------RMIITINAFF 539

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  434 bits (1117), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 361/999 (36%), Positives = 510/999 (51%), Gaps = 126/999 (12%)

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  SAALCCDGCSFSGSILKIKRPKEFVEVA------------------------IFIGGISR 560
            +AAL  DG SF GS LKI+RPKE+VE+A                        IFI GIS 
Sbjct: 700  TAALSFDGRSFGGSSLKIRRPKEYVEMAHVAPKKPSEEIKLISDVVADSPHKIFIAGISG 759

Query: 561  TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL 620
             +SS+M+MEIV +FGPL AY F  NED    CAF+EY+D  +T KA AGLNG+K+GG +L
Sbjct: 760  VISSEMLMEIVSSFGPLAAYRFLFNEDLGGACAFLEYIDHSITSKACAGLNGMKLGGGIL 819

Query: 621  TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEV 680
            TAV    + +    +   PF+GIP  A  LL++PT+VL+LKNVF+ E +  LS+ E+EE+
Sbjct: 820  TAVNVFPNSTEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEI 879

Query: 681  LEDVRLECARFGSVKSVNVVKYGDSNIS----TIQACE------------GNENTASAGV 724
            LEDVR+ECARFG+VKS+NVV+Y  S+ +    TI  CE            GN +    GV
Sbjct: 880  LEDVRVECARFGAVKSINVVEYPASSDNTTGDTITECEDGSTKIEPKEYGGNVSCTETGV 939

Query: 725  GQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGD 784
              ++ N  T+     + EV D   +  + +    D K +   GE +        + T GD
Sbjct: 940  ECSVLNQSTDVPDPSICEVQDPVELDTDSIPKGRDHKNLDTRGECD--------APTAGD 991

Query: 785  EPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEE 844
            E       +TD  VE    DST          Q +        H D    +++    +  
Sbjct: 992  E-------NTDQGVEADQTDSTD--------AQDDARGTIERGHADADQASLETSCSTAP 1036

Query: 845  NKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEY 904
               + K     E+  G      G S     ++ AV+  DN     +     E GC+ VE+
Sbjct: 1037 GDGADKSGRENEQQGG-----AGVSESNTEKAPAVDARDNALA--SNTSALEAGCILVEF 1089

Query: 905  MRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 943
            +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|108706080|gb|ABF93875.1| RNA recognition motif family protein, expressed [Oryza sativa Japonica Group]

 Score =  429 bits (1103), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 361/999 (36%), Positives = 508/999 (50%), Gaps = 126/999 (12%)

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 SAALCCDGCSFSGSILKIKRPKEFVEVA------------------------IFIGGISR 560
           +AAL  DG SF GS LKI+RPKE+VE+A                        IFI GIS 
Sbjct: 536 TAALSFDGRSFGGSSLKIRRPKEYVEMAHVAPKKPSEEIKLISDVVADSPHKIFIAGISG 595

Query: 561 TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL 620
            +SS+M+MEIV +FGPL AY F  NE     CAF+EY+D  +T KA AGLNG+K+GG +L
Sbjct: 596 VISSEMLMEIVSSFGPLAAYRFLFNEYLGGACAFLEYIDHSITSKACAGLNGMKLGGGIL 655

Query: 621 TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEV 680
           TAV    + +    +   PF+GIP  A  LL++PT+VL+LKNVF+ E +  LS+ E+EE+
Sbjct: 656 TAVNVFPNSTEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEI 715

Query: 681 LEDVRLECARFGSVKSVNVVKYGDSNIS----TIQACE------------GNENTASAGV 724
           LEDVR+ECARFG+VKS+NVVKY  S+ +    TI  CE            GN +    GV
Sbjct: 716 LEDVRVECARFGAVKSINVVKYPASSDNTTGDTITECEDGSTKIEPKEYGGNVSCTETGV 775

Query: 725 GQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGD 784
             ++ N  T+     + EV D   +  + +    D K +   GE +        + T GD
Sbjct: 776 ECSVLNQSTDVPDPSICEVQDPVELDTDSIPKGRDHKNLDTRGECD--------APTAGD 827

Query: 785 EPSQLCELDTDMAVEYQARDSTSEIVSQGVPTQVNTLKDSPCAHDDKVTCNIQLEHMSEE 844
           E       +TD  VE    DST          Q +        H D    +++    +  
Sbjct: 828 E-------NTDQGVEADQTDSTD--------AQDDARGTIERGHADADPASLETSCSTAP 872

Query: 845 NKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEY 904
              + K     E+  G      G S     ++ AV+  DN     +     E GC+ VE+
Sbjct: 873 GDGADKSGRENEQQGG-----AGVSESNTEKAPAVDARDNALA--SNTSALEAGCILVEF 925

Query: 905 MRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK 943
           +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	943
TAIR|locus:1005716652	979	AT2G33435 [Arabidopsis thalian	0.259	0.250	0.486	3.1e-60
WB|WBGene00006697	496	uaf-1 [Caenorhabditis elegans	0.156	0.298	0.305	1.1e-24
FB|FBgn0005411	416	U2af50 "U2 small nuclear ribop	0.092	0.209	0.363	9.1e-24
ZFIN|ZDB-GENE-050706-131	470	u2af2a "U2 small nuclear RNA a	0.158	0.317	0.304	5.3e-23
ZFIN|ZDB-GENE-040426-1881	475	u2af2b "U2 small nuclear RNA a	0.173	0.345	0.291	2.7e-22
UNIPROTKB|E2R0G3	471	U2AF2 "Uncharacterized protein	0.211	0.422	0.278	3.8e-21
TAIR|locus:2206001	589	AT1G60900 [Arabidopsis thalian	0.196	0.314	0.256	6.5e-21
UNIPROTKB|P26368	475	U2AF2 "Splicing factor U2AF 65	0.211	0.418	0.278	1.7e-20
MGI|MGI:98886	475	U2af2 "U2 small nuclear ribonu	0.211	0.418	0.278	1.7e-20
RGD|1597319	475	LOC690372 "similar to U2 (RNU2	0.211	0.418	0.278	1.7e-20

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

 Score = 551 (199.0 bits), Expect = 3.1e-60, Sum P(2) = 3.1e-60
 Identities = 122/251 (48%), Positives = 158/251 (62%)

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 KRPKEFVEVAI 553
             +RPK++V   +
Sbjct:   957 RRPKDYVRTTV 967

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

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

 Score = 167 (63.8 bits), Expect = 1.1e-24, Sum P(5) = 1.1e-24
 Identities = 48/157 (30%), Positives = 79/157 (50%)

Query:   553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLN 611
             IFIGG+   L+   V E++C+FGPLKA+   V+ + + +  AF EY+D  +T +AIAGLN
Sbjct:   293 IFIGGLPNYLTEDQVKELLCSFGPLKAFSLNVDSQGNSKGYAFAEYLDPTLTDQAIAGLN 352

Query:   612 GLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLK---KPTEVLKLKNVFNPEG 668
             G+++G + L  VQ         N+ N P        + L +   + TE+L L N+   + 
Sbjct:   353 GMQLGDKQLV-VQLACANQQRHNT-NLPNSASAIAGIDLSQGAGRATEILCLMNMVTEDE 410

Query:   669 FXXXXXXXXXXXXXXXXXXCARFGSVKSVNVVK-YGD 704
                                C+++G V+S+ + + Y D
Sbjct:   411 LKADDEYEEILEDVRDE--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

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

 Score = 155 (59.6 bits), Expect = 9.1e-24, Sum P(5) = 9.1e-24
 Identities = 32/88 (36%), Positives = 50/88 (56%)

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 AEDASAALCCDGCSFSGSILKIKRPKEF 548
              ++ + A+  DG +  G  LKI+RP ++
Sbjct:   149 IDETTQAMAFDGINLKGQSLKIRRPHDY 176

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

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

 Score = 158 (60.7 bits), Expect = 5.3e-23, Sum P(4) = 5.3e-23
 Identities = 53/174 (30%), Positives = 84/174 (48%)

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 HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
                G+ P +   I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++
Sbjct:   173 QAPGN-PVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY 225

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

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

 Score = 161 (61.7 bits), Expect = 2.7e-22, Sum P(4) = 2.7e-22
 Identities = 55/189 (29%), Positives = 90/189 (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 LKIKRPKEF 548
             LKI+RP ++
Sbjct:   227 LKIRRPHDY 235

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

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

 Score = 161 (61.7 bits), Expect = 3.8e-21, Sum P(3) = 3.8e-21
 Identities = 62/223 (27%), Positives = 97/223 (43%)

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 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY 232

GO:0006397 "mRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

TAIR|locus:2206001 AT1G60900 [Arabidopsis thaliana (taxid:3702)]

 Score = 133 (51.9 bits), Expect = 6.5e-21, Sum P(4) = 6.5e-21
 Identities = 51/199 (25%), Positives = 87/199 (43%)

Query:   353 RRHDGSTSGLGGYSPRKRRTEAAAKTPSPINRSPEKKSAKWDVAPVETYSVPSNVHTSNQ 412
             R    S S     S  + ++E  +++ S  +RS  K+ + +D+AP      P  +  +  
Sbjct:   152 RSRSRSRSERRSRSEHRHKSEHRSRSRSR-SRSKSKRRSGFDMAP------PDMLAATAV 204

Query:   413 AASSNAHEMVSSDPVTSTTQKPLAGISVSA---SLAKLNVSMDSVQLTQSNRPMRRLCVE 469
             AA+      V S P T+T     + +        L  L V        Q+ R  RR+ V 
Sbjct:   205 AAAGQ----VPSVPTTATIPGMFSNMFPMVPGQQLGALPVLPVQAMTQQATRHARRVYVG 260

Query:   470 NLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC 529
              LP +A+E+++  F +  + + G          +   I  EK  AFVE  + E+AS A+ 
Sbjct:   261 GLPPTANEQSVSTFFSQVMSAIGGNTAGPGDAVVNVYINHEKKFAFVEMRSVEEASNAMA 320

Query:   530 CDGCSFSGSILKIKRPKEF 548
              DG    G  +K++RP ++
Sbjct:   321 LDGIILEGVPVKVRRPTDY 339

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006397 "mRNA processing" evidence=IEA

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

 Score = 161 (61.7 bits), Expect = 1.7e-20, Sum P(3) = 1.7e-20
 Identities = 62/223 (27%), Positives = 97/223 (43%)

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 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY 232

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 = 161 (61.7 bits), Expect = 1.7e-20, Sum P(3) = 1.7e-20
 Identities = 62/223 (27%), Positives = 97/223 (43%)

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 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY 232

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 = 161 (61.7 bits), Expect = 1.7e-20, Sum P(3) = 1.7e-20
 Identities = 62/223 (27%), Positives = 97/223 (43%)

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 VIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEF 548
              I ++K  AF+EF + ++ + A+  DG  F G  LKI+RP ++
Sbjct:   190 QINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDY 232

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

---

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

Your Input: GSVIVG00020315001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (902 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	943
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	2e-35
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	4e-24
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	1e-16
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	1e-06
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-06
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	4e-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
smart00360	73	smart00360, RRM, RNA recognition motif	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
cd12616	81	cd12616, RRM1_TIAR, RNA recognition motif 1 in nuc	3e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	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
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	0.003
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	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 =  141 bits (358), Expect = 2e-35
 Identities = 121/478 (25%), Positives = 195/478 (40%), Gaps = 75/478 (15%)

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 -IQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA------------- 552
            I +EK  AF+EF T E+A+ A+  D   +S   LKI+RP +++ V              
Sbjct: 218 NINKEKNFAFLEFRTVEEATFAMALDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDD 277

Query: 553 --------------------IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEE 590
                               I+IG +   L    + E++ +FG LKA++   ++     +
Sbjct: 278 NAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSK 337

Query: 591 PCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT---AVQAVLDGSIMDNSGNPPF----HGI 643
             AF EY D  VT  AIA LNG   G   L    A       +I  ++G  P       +
Sbjct: 338 GYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKAL 397

Query: 644 PKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 701
            +  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 = 96.5 bits (241), 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 = 75.0 bits (185), Expect = 1e-16
 Identities = 34/75 (45%), Positives = 47/75 (62%), Gaps = 5/75 (6%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC---AFIEYVDQLVTPKAIAG 609
           IFIGG+   LS   V E++ +FG LKA++  V +         AF EY+D  VT +AIAG
Sbjct: 3   IFIGGLPNYLSEDQVKELLESFGKLKAFNL-VKDSATGLSKGYAFCEYLDPSVTDQAIAG 61

Query: 610 LNGLKVGGQVLTAVQ 624
           LNG+++G + LT VQ
Sbjct: 62  LNGMQLGDKKLT-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: 655 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSV 697
           + 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|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 = 4e-06
 Identities = 13/43 (30%), Positives = 18/43 (41%)

Query: 888 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVE 930
           +     +   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|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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           +++G + RT++  ++ E+    GP+K+    + E   +P AF+EY D      A+  +NG
Sbjct: 1   LYVGNLDRTVTEDLLAELFSQIGPIKSCKL-IREHGNDPYAFVEYYDHRSAAAALQTMNG 59

Query: 613 LKVGGQ 618
             + 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|214636 smart00360, RRM, RNA recognition motif

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 15/71 (21%), Positives = 36/71 (50%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGL 610
           +F+G +    + + + E+   FG +++     +++  +    AF+E+  +    KA+  L
Sbjct: 2   LFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEAL 61

Query: 611 NGLKVGGQVLT 621
           NG ++ G+ L 
Sbjct: 62  NGKELDGRPLK 72

Length = 73

>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: 655 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 701
           +  + 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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLN 611
           +F+G +    + + + E+   FG +++     ++D   +  AF+E+       KA+  LN
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 612 GLKVGGQVLTA 622
           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: 898 GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARF 941
           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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           +++G +SR ++  +++++    GP K+    ++    +P  F+E+ +      ++A +NG
Sbjct: 2   LYVGNLSRDVTEALILQLFSQIGPCKSCKMIMDTAGNDPYCFVEFFEHRHAAASLAAMNG 61

Query: 613 LKVGGQ 618
            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|241060 cd12616, RRM1_TIAR, RNA recognition motif 1 in nucleolysin TIAR and similar proteins

 Score = 39.7 bits (92), Expect = 3e-04
 Identities = 15/66 (22%), Positives = 35/66 (53%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           +++G +SR ++  +++++    GP K+          +P  F+E+ +      A+A +NG
Sbjct: 2   LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNG 61

Query: 613 LKVGGQ 618
            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|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|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: 657 VLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
           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: 654 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 701
           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 = 37.4 bits (87), 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|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 = 37.3 bits (87), 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 = 36.8 bits (86), Expect = 0.003
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 1/70 (1%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 611
           +F+G +    + + + ++   FGP++            +  AF+E+ D+    KA+  LN
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 612 GLKVGGQVLT 621
           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|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	943
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	100.0
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	100.0
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	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
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	100.0
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	100.0
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	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	99.98
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.98
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.97
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.97
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.96
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.96
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.96
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.95
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.94
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.94
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.93
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.92
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.92
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.91
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.89
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.89
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.88
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.88
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.86
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.85
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	99.84
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.84
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.83
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.79
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.78
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.76
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.73
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.73
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.71
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.69
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.66
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.59
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.52
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.52
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.5
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.48
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.47
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.47
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.44
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.41
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.38
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.37
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.36
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.35
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	99.33
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.24
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.22
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.18
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.18
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.18
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.15
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	99.12
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.11
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.09
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.06
PLN03120	260	nucleic acid binding protein; Provisional	99.03
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.03
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.02
PLN03213	759	repressor of silencing 3; Provisional	99.02
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.01
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	99.01
smart00362	72	RRM_2 RNA recognition motif.	99.0
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.0
KOG0122	270	consensus Translation initiation factor 3, subunit	98.99
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.99
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.98
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.97
PLN03120	260	nucleic acid binding protein; Provisional	98.95
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.94
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.93
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.89
smart00361	70	RRM_1 RNA recognition motif.	98.88
PLN03121	243	nucleic acid binding protein; Provisional	98.87
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.86
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.86
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.85
PLN03121	243	nucleic acid binding protein; Provisional	98.84
smart00360	71	RRM RNA recognition motif.	98.83
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.82
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.82
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.8
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.8
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.8
smart00362	72	RRM_2 RNA recognition motif.	98.79
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.79
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.77
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.77
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.76
PLN03213	759	repressor of silencing 3; Provisional	98.75
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.69
KOG0122	270	consensus Translation initiation factor 3, subunit	98.68
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.68
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.67
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.64
smart00361	70	RRM_1 RNA recognition motif.	98.63
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.59
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.58
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	98.57
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.55
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.55
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.55
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.5
smart00360	71	RRM RNA recognition motif.	98.48
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.47
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.45
KOG0226	290	consensus RNA-binding proteins [General function p	98.38
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.34
KOG1996	378	consensus mRNA splicing factor [RNA processing and	98.34
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.33
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	98.23
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.18
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.18
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.17
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	98.17
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.14
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.13
KOG4210	285	consensus Nuclear localization sequence binding pr	98.08
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.07
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	98.05
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.04
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.0
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.99
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	97.95
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	97.92
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	97.91
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.84
KOG1996	378	consensus mRNA splicing factor [RNA processing and	97.84
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.84
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	97.83
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.77
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.77
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.69
KOG4210	285	consensus Nuclear localization sequence binding pr	97.62
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	97.61
KOG0151	877	consensus Predicted splicing regulator, contains R	97.6
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.58
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.58
KOG0151	877	consensus Predicted splicing regulator, contains R	97.54
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.45
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.4
KOG0226	290	consensus RNA-binding proteins [General function p	97.39
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.22
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.21
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.17
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.16
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	97.0
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.91
KOG2314	698	consensus Translation initiation factor 3, subunit	96.9
PF06495	182	Transformer: Fruit fly transformer protein; InterP	96.74
KOG2888	453	consensus Putative RNA binding protein [General fu	96.61
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.59
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.43
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.37
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.79
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	95.47
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	95.33
KOG2314	698	consensus Translation initiation factor 3, subunit	95.21
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	94.81
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	94.59
KOG3152	278	consensus TBP-binding protein, activator of basal	94.39
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	94.25
KOG0670	752	consensus U4/U6-associated splicing factor PRP4 [R	94.24
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	94.18
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.08
KOG1855	484	consensus Predicted RNA-binding protein [General f	93.77
KOG1847	878	consensus mRNA splicing factor [RNA processing and	93.69
KOG1847	878	consensus mRNA splicing factor [RNA processing and	93.57
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	93.46
KOG3152	278	consensus TBP-binding protein, activator of basal	93.37
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	93.34
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	93.15
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.93
KOG1855	484	consensus Predicted RNA-binding protein [General f	92.87
KOG0670	752	consensus U4/U6-associated splicing factor PRP4 [R	92.4
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	92.11
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	91.49
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	90.94
PF08648	180	DUF1777: Protein of unknown function (DUF1777); In	88.77
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	88.58
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	87.42
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	87.19
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	87.07
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	85.6
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	82.14
KOG2548	653	consensus SWAP mRNA splicing regulator [RNA proces	81.97
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	81.57

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

Probab=100.00  E-value=1.9e-51  Score=486.91  Aligned_cols=285  Identities=26%  Similarity=0.407  Sum_probs=241.9

Q ss_pred             cccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccc
Q 002280          457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFS  536 (943)
Q Consensus       457 ~~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~  536 (943)
                      ++.++..++|||||||+.+|+++|+++|++++...++.......+|..+.++.++|||||+|.+.++|..||.|||+.|.
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            45678889999999999999999999999998777765554345888899999999999999999999999999999999


Q ss_pred             cccccccCCcccee---------------------------------EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEE
Q 002280          537 GSILKIKRPKEFVE---------------------------------VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE  583 (943)
Q Consensus       537 Gr~LkV~rp~d~~~---------------------------------~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~  583 (943)
                      |++|+|.+|.+|.+                                 .+|||+|||..+++++|.++|+.||.|..+.|+
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            99999998776541                                 289999999999999999999999999999998


Q ss_pred             ec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCC---CCCCCC----CCCCcCCCCCCC
Q 002280          584 VN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSG---NPPFHG----IPKHALPLLKKP  654 (943)
Q Consensus       584 ~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~---~~~~~~----ip~~~~~~~~~p  654 (943)
                      .+  ++.++|||||+|.+.++|..|+..|||..|+|+.|.|.+|...........   ..++..    +..........|
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            87  466899999999999999999999999999999999999865443221111   111111    111112233568


Q ss_pred             ceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC----CCCcceeEEEEeCCHHHHHHHHHHhCC
Q 002280          655 TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG----DSNISTIQACEGNENTASAGVGQNLTN  730 (943)
Q Consensus       655 s~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~----~g~~~G~~FVeF~~~e~A~~Ai~~LnG  730 (943)
                      ++||+|.||+++++|  +++.+|++|.+||+++|++||.|+.|.|+++.    .+...|++||+|.+.++|.+|+.+|||
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    234568999999999999999999999


Q ss_pred             CccCCCceEEEEe
Q 002280          731 DETNEKGERLEEV  743 (943)
Q Consensus       731 r~~~~k~~~v~~~  743 (943)
                      ++|+++++.+...
T Consensus       487 r~~~gr~v~~~~~  499 (509)
T TIGR01642       487 RKFNDRVVVAAFY  499 (509)
T ss_pred             CEECCeEEEEEEe
Confidence            9999999988664

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

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

Probab=100.00  E-value=2.9e-45  Score=415.32  Aligned_cols=301  Identities=34%  Similarity=0.534  Sum_probs=243.9

Q ss_pred             ccccCCCCCCCCCccccCCccccccccccccCCCcCCCCCCCCccccCCCcCcccchhhcccccccccccccccCCCCCe
Q 002280          386 PEKKSAKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTSTTQKPLAGISVSASLAKLNVSMDSVQLTQSNRPMRR  465 (943)
Q Consensus       386 ~~rr~~~~di~P~~~~~v~~~~q~~~qa~~~g~~p~p~~~p~~~~~~~~~~g~~~~~~~~~~~~~~~s~~~~~~~~~~rt  465 (943)
                      ..+....|+++|++|+.+++..     +...+++.+.++.|.........+.         ......+.+..+++.+.++
T Consensus       112 ~~r~~~~~~~~~~~fe~~~p~~-----~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~t~q~~r  177 (500)
T KOG0120|consen  112 YSRKRSLWDVPPEGFETITPDG-----AKLYKNFNATGQVPGDLSNPKKSLK---------LPQLPTPPMDSQATRQARR  177 (500)
T ss_pred             cccchhhhcCCCCCCcccCchh-----hhhhhhccccCCCCCCccccccccc---------cccCCCCccCcchhhhhhh
Confidence            3456678999999999887722     1111223333333332211110000         0001112334466788999


Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccCC
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRP  545 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~rp  545 (943)
                      +||+++|+.++++.+..+|+.-+...|+........++.+.++..++||||+|.+.++|..|+.++++.+.|.++++.+|
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            99999999999999999999987777887776556899999999999999999999999999999999999999999988


Q ss_pred             ccceeE---------------------------EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEe
Q 002280          546 KEFVEV---------------------------AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIE  596 (943)
Q Consensus       546 ~d~~~~---------------------------~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVe  596 (943)
                      .+|.+.                           ++||++||..+++.++.++...||++..+.++.+.  +.++||||.+
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            876543                           89999999999999999999999999999999884  4789999999


Q ss_pred             ecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCC---CCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCC
Q 002280          597 YVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGN---PPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLS  673 (943)
Q Consensus       597 F~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~---~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~  673 (943)
                      |.++..+..|++.|||+.+++++|.|+.|.+.+.......+   .++++++....+..+.|+.||+|.|++++++|  ++
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            99999999999999999999999999999887765433322   24666776666777899999999999999999  69


Q ss_pred             hHHHHHHHHHHHHHhcCCCCeEEEEEecC
Q 002280          674 ELEVEEVLEDVRLECARFGSVKSVNVVKY  702 (943)
Q Consensus       674 ~~~~~ei~eDlre~fskFG~V~~V~I~r~  702 (943)
                      +++|++|+|||+.+|.+||.|.+|.||++
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            99999999999999999999999999995

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

Probab=100.00  E-value=5.4e-45  Score=406.66  Aligned_cols=329  Identities=17%  Similarity=0.184  Sum_probs=225.2

Q ss_pred             CCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCC
Q 002280          561 TLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP  638 (943)
Q Consensus       561 ~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~  638 (943)
                      .+++-+|.++|+.+|.|..|.++.|  ...++|.|||+|.+.+.+..|| +|.|..+.|.+|.|.......+....  ..
T Consensus       190 r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~a~--~s  266 (549)
T KOG0147|consen  190 RNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRAAN--AS  266 (549)
T ss_pred             cCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHHHh--cc
Confidence            3456788899999999999999888  4567999999999999999999 59999999999999865433222111  11


Q ss_pred             CCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcceeEEEEeCC
Q 002280          639 PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNISTIQACEGNE  717 (943)
Q Consensus       639 ~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~G~~FVeF~~  717 (943)
                      +..+....     ..|-.-|++.||....+.            ++|+..|++||.|+.|.++++. +|.++|||||+|.+
T Consensus       267 ~a~~~k~~-----~~p~~rl~vgnLHfNite------------~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~  329 (549)
T KOG0147|consen  267 PALQGKGF-----TGPMRRLYVGNLHFNITE------------DMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVN  329 (549)
T ss_pred             cccccccc-----ccchhhhhhcccccCchH------------HHHhhhccCcccceeeeeccccccccccCcceEEEec
Confidence            11111111     122222889999664332            6899999999999999999996 99999999999999


Q ss_pred             HHHHHHHHHHhCCCccCCCceEEEEeccccccccchhhhccchhhHhhhcccccccCCCCCCCCCCCCcccccccchhhh
Q 002280          718 NTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPASGTMGDEPSQLCELDTDMA  797 (943)
Q Consensus       718 ~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~d~~~~~~lm~~~~~~~~~~~~~~a  797 (943)
                      .++|.+|+.+|||.++.|++++|..+++.-.++..+            ....+.|.++  ..+|   .++ .+..+..|+
T Consensus       330 ~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~------------~~~~d~D~~d--~~gl---~~~-~~g~~Ql~~  391 (549)
T KOG0147|consen  330 KEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAA------------VTQFDFDEDD--RQGL---SLG-SGGRNQLMA  391 (549)
T ss_pred             HHHHHHHHHHhccceecCceEEEEEeeeeccccccc------------ccccccchhh--cccc---ccc-cccHHHHHH
Confidence            999999999999999999999999888754222110            1112222222  1122   111 111222222


Q ss_pred             hhhhc-cCCccccccCC---Ccccc-----C--CCCCCCCCCCCcccccccccccccccccccccccccccccCCCcccc
Q 002280          798 VEYQA-RDSTSEIVSQG---VPTQV-----N--TLKDSPCAHDDKVTCNIQLEHMSEENKSSAKEDLNLEEVNGNSEAFT  866 (943)
Q Consensus       798 ~~~~~-~~~~~~~~~~~---~~~~~-----~--~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  866 (943)
                      .+-.+ ..+.++.....   .+.+.     +  .....++...-             -+-|.++++|.++.+|||+..++
T Consensus       392 kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~-------------~p~~~i~t~C~lL~nMFdpstet  458 (549)
T KOG0147|consen  392 KLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADA-------------SPAFDIPTQCLLLSNMFDPSTET  458 (549)
T ss_pred             HHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCcccc-------------ccccCCccHHHHHhhcCCccccc
Confidence            21111 11111111111   00000     0  00000000000             12233455555566666666677


Q ss_pred             CcccccccccccccC----CCCCCCCCCCCCccCCceEEEEecCHHHHHHHHHHhhcCccCCceEEEEeechhhHHhhcC
Q 002280          867 GASNEMGMQSSAVEN----GDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARFS  942 (943)
Q Consensus       867 ~~~~~~~~~e~~~~~----~~~~~~~~d~~~i~~~g~v~v~f~~~~~a~~a~~~l~gr~f~~~~v~~~y~~~~~y~~~fp  942 (943)
                      ++.|+++|.|||.|+    |.+.|+.||+|+   .|||||+|.++++|.+|+++||||||+||+|+|.|||+..||.+||
T Consensus       459 e~n~d~eI~edV~Eec~k~g~v~hi~vd~ns---~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~FP  535 (549)
T KOG0147|consen  459 EPNWDQEIREDVIEECGKHGKVCHIFVDKNS---AGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKFP  535 (549)
T ss_pred             CcchhhHHHHHHHHHHHhcCCeeEEEEccCC---CceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhCC
Confidence            788999999999988    999999999999   4999999999999999999999999999999999999999999999


Q ss_pred             C
Q 002280          943 K  943 (943)
Q Consensus       943 ~  943 (943)
                      +
T Consensus       536 ~  536 (549)
T KOG0147|consen  536 D  536 (549)
T ss_pred             C
Confidence            5

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

Probab=100.00  E-value=8.9e-41  Score=390.85  Aligned_cols=273  Identities=22%  Similarity=0.270  Sum_probs=221.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      +..++|||+|||..+|+++|+++|+.||.+..   +   ..+.+..++.++|||||+|.+.++|.+||.|+|..|.|++|
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            45689999999999999999999999885322   2   24455667889999999999999999999999999999999


Q ss_pred             cccCCcc-----------c-----eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhH
Q 002280          541 KIKRPKE-----------F-----VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLV  602 (943)
Q Consensus       541 kV~rp~d-----------~-----~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~  602 (943)
                      .|.....           .     ...+|||+|||..+++++|.++|++||.|..|.|+.+.  +.++|||||+|.+.++
T Consensus       161 ~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~  240 (457)
T TIGR01622       161 IVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEE  240 (457)
T ss_pred             EEeecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHH
Confidence            9874321           0     01389999999999999999999999999999998874  4679999999999999


Q ss_pred             HHHHHHHhCCCccCCeEEEEEEcccCCCcCC---------------C----------------CC---CCCCC-------
Q 002280          603 TPKAIAGLNGLKVGGQVLTAVQAVLDGSIMD---------------N----------------SG---NPPFH-------  641 (943)
Q Consensus       603 A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~---------------~----------------~~---~~~~~-------  641 (943)
                      |.+|+..|||..|.|+.|.|.+|........               .                .+   ...+.       
T Consensus       241 A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (457)
T TIGR01622       241 AKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIA  320 (457)
T ss_pred             HHHHHHhcCCcEECCEEEEEEEccCCCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhh
Confidence            9999999999999999999999642110000               0                00   00000       


Q ss_pred             -------------CCC---------CC----cCCC--CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCC
Q 002280          642 -------------GIP---------KH----ALPL--LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGS  693 (943)
Q Consensus       642 -------------~ip---------~~----~~~~--~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~  693 (943)
                                   .++         ..    ..+.  ...+++||+|.||+++.++  .++.++.+|++||+++|++||.
T Consensus       321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~--~~~~~~~~~~~dv~~e~~k~G~  398 (457)
T TIGR01622       321 LMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATE--EEPNFDNEILDDVKEECSKYGG  398 (457)
T ss_pred             hhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCccc--ccchHHHHHHHHHHHHHHhcCC
Confidence                         000         00    0000  2367899999999999887  5889999999999999999999


Q ss_pred             eEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          694 VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       694 V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |+.|.|+.+.   ..|++||+|.+.++|.+|+++|||++|+++.+.+....
T Consensus       399 v~~v~v~~~~---~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~~~~~  446 (457)
T TIGR01622       399 VVHIYVDTKN---SAGKIYLKFSSVDAALAAFQALNGRYFGGKMITAAFVV  446 (457)
T ss_pred             eeEEEEeCCC---CceeEEEEECCHHHHHHHHHHhcCcccCCeEEEEEEEc
Confidence            9999998643   46889999999999999999999999999999987654

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=3e-36  Score=352.74  Aligned_cols=337  Identities=11%  Similarity=0.109  Sum_probs=215.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||. |+|..|.|++|.|..+....
T Consensus        91 ~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~~~  169 (457)
T TIGR01622        91 TVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQAEK  169 (457)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecchhh
Confidence            8999999999999999999999999999999987  45679999999999999999996 99999999999998764332


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      ........    ..     +.....+.+|+|.||....+            .++|+++|++||.|..|.|+.+. .|..+
T Consensus       170 ~~~~~~~~----~~-----~~~~p~~~~l~v~nl~~~~t------------e~~l~~~f~~~G~i~~v~~~~d~~~g~~~  228 (457)
T TIGR01622       170 NRAAKAAT----HQ-----PGDIPNFLKLYVGNLHFNIT------------EQELRQIFEPFGDIEDVQLHRDPETGRSK  228 (457)
T ss_pred             hhhhhccc----cc-----CCCCCCCCEEEEcCCCCCCC------------HHHHHHHHHhcCCeEEEEEEEcCCCCccc
Confidence            21110000    00     00112368899999975333            26889999999999999999875 45889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccccccccchhhhccchhhHhhhcccccccCCCCC--------CC
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNNELEILNDSKEVMEAGEVNNVKDNRPA--------SG  780 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~d~~~~--------~~  780 (943)
                      |||||+|.+.++|..|+..|||..|.++.+.|....+..........          .  .+........        ..
T Consensus       229 g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~~~~~~~~~~----------~--~~~~~~~~~~~~~~~~~~~~  296 (457)
T TIGR01622       229 GFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDSTYLLDAANT----------F--EDIDKQQQMGKNLNTEEREQ  296 (457)
T ss_pred             eEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCCCccccchhh----------h--ccccccccCCcCCCccchHH
Confidence            99999999999999999999999999999999887643211111000          0  0000000000        00


Q ss_pred             CCCCC----------cccccccchhhhhhhhccCCccccccCCCccc---cCCCCCCCCCCCCccccccccccccccccc
Q 002280          781 TMGDE----------PSQLCELDTDMAVEYQARDSTSEIVSQGVPTQ---VNTLKDSPCAHDDKVTCNIQLEHMSEENKS  847 (943)
Q Consensus       781 lm~~~----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  847 (943)
                      +|...          +.....-...|.....  .+.   .....+..   ..................+...|+++.|||
T Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~  371 (457)
T TIGR01622       297 LMEKLDRDDGDGGLLIPGTGSKIALMQKLQR--DGI---IDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMF  371 (457)
T ss_pred             HHHhhccCCCCccccCCCccchhhhhccccc--ccc---ccccccccccccccccccCCCCCCcccCCCCCcEEEEecCC
Confidence            00000          0000000000000000  000   00000000   000000000000000011334555555554


Q ss_pred             ccccccccccccCCCccccCccccccccccccc----CCCCCCCCCCCCCccCCceEEEEecCHHHHHHHHHHhhcCccC
Q 002280          848 SAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVE----NGDNENQDPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFD  923 (943)
Q Consensus       848 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~----~~~~~~~~~d~~~i~~~g~v~v~f~~~~~a~~a~~~l~gr~f~  923 (943)
                      .+             .....+.|..+|.+|+.+    -|.+.+..+....  ..|+|||+|.+.++|++|+++||||||+
T Consensus       372 ~~-------------~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~--~~G~~fV~F~~~e~A~~A~~~lnGr~f~  436 (457)
T TIGR01622       372 DP-------------ATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKN--SAGKIYLKFSSVDAALAAFQALNGRYFG  436 (457)
T ss_pred             CC-------------cccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCC--CceeEEEEECCHHHHHHHHHHhcCcccC
Confidence            43             333344455544444444    4777666665433  3699999999999999999999999999


Q ss_pred             CceEEEEeechhhHHhhcC
Q 002280          924 DRIVAVEYIPLNLYRARFS  942 (943)
Q Consensus       924 ~~~v~~~y~~~~~y~~~fp  942 (943)
                      ||.|+|.|++.+.|...||
T Consensus       437 gr~i~~~~~~~~~~~~~~~  455 (457)
T TIGR01622       437 GKMITAAFVVNDVYDMSCL  455 (457)
T ss_pred             CeEEEEEEEcHHHHHhhcC
Confidence            9999999999999999997

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=9e-36  Score=357.39  Aligned_cols=245  Identities=18%  Similarity=0.236  Sum_probs=205.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      +|||||||+++||++|.++|+.||.+..   |   ..+.+..+++++|||||+|.+.++|.+||. ||+..|.|++|+|.
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 SLYVGDLDPDVTEAKLYDLFKPFGPVLS---V---RVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIM   75 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEE---E---EEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEee
Confidence            6999999999999999999999985322   2   244555678899999999999999999998 99999999999998


Q ss_pred             CCccc------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          544 RPKEF------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       544 rp~d~------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                      +....      ...+|||+|||..+++++|+++|+.||.|..|+|..+ .+.++|||||+|.+.++|.+|+..|||..+.
T Consensus        76 ~s~~~~~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~  155 (562)
T TIGR01628        76 WSQRDPSLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLN  155 (562)
T ss_pred             cccccccccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEec
Confidence            64311      1128999999999999999999999999999999887 4568999999999999999999999999999


Q ss_pred             CeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEE
Q 002280          617 GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKS  696 (943)
Q Consensus       617 gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~  696 (943)
                      |+.|.|....+......                ........|+|.|+....+            .++|+++|++||.|++
T Consensus       156 ~~~i~v~~~~~~~~~~~----------------~~~~~~~~l~V~nl~~~~t------------ee~L~~~F~~fG~i~~  207 (562)
T TIGR01628       156 DKEVYVGRFIKKHEREA----------------APLKKFTNLYVKNLDPSVN------------EDKLRELFAKFGEITS  207 (562)
T ss_pred             CceEEEecccccccccc----------------ccccCCCeEEEeCCCCcCC------------HHHHHHHHHhcCCEEE
Confidence            99999976543222110                0012345688999965333            2689999999999999


Q ss_pred             EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC----CCceEEEEe
Q 002280          697 VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN----EKGERLEEV  743 (943)
Q Consensus       697 V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~----~k~~~v~~~  743 (943)
                      |.|.++..+..+|||||+|.+.++|.+|+..|||..|.    ++.+.+...
T Consensus       208 ~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a  258 (562)
T TIGR01628       208 AAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRA  258 (562)
T ss_pred             EEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecc
Confidence            99999988999999999999999999999999999999    776666443

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=5.1e-35  Score=330.70  Aligned_cols=265  Identities=15%  Similarity=0.197  Sum_probs=210.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|+
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 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESC------KLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIK   76 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEE------EEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEE
Confidence            5689999999999999999999999864332      234455668899999999999999999998 999999999999


Q ss_pred             ccCCc--c--ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          542 IKRPK--E--FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       542 V~rp~--d--~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      |....  .  ....+|||+|||..+++++|.++|+.||.|..+.++.+  .+.++|||||+|.+.++|..|+..|||..+
T Consensus        77 v~~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~  156 (352)
T TIGR01661        77 VSYARPSSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTP  156 (352)
T ss_pred             EEeecccccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCcc
Confidence            97432  2  22348999999999999999999999999999998877  456799999999999999999999999998


Q ss_pred             CC--eEEEEEEcccCCCcCCC-------------CCCC------------CCC---------------------------
Q 002280          616 GG--QVLTAVQAVLDGSIMDN-------------SGNP------------PFH---------------------------  641 (943)
Q Consensus       616 ~g--r~L~V~~A~~~~~~~~~-------------~~~~------------~~~---------------------------  641 (943)
                      .|  ..|.|.++.........             ....            ++.                           
T Consensus       157 ~g~~~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (352)
T TIGR01661       157 SGCTEPITVKFANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVA  236 (352)
T ss_pred             CCCceeEEEEECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccc
Confidence            77  57888887533210000             0000            000                           


Q ss_pred             --CCCCC-----------------cCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC
Q 002280          642 --GIPKH-----------------ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  702 (943)
Q Consensus       642 --~ip~~-----------------~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~  702 (943)
                        ..+..                 ..+.....+.+|+|.||....+.            ++|+++|++||.|++|.|+++
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e------------~~L~~~F~~fG~v~~v~i~~d  304 (352)
T TIGR01661       237 QQHAAQRASPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDE------------TVLWQLFGPFGAVQNVKIIRD  304 (352)
T ss_pred             cccccccCCCccccccccccccCCCCCCCCCCCcEEEEeCCCCCCCH------------HHHHHHHHhCCCeEEEEEeEc
Confidence              00000                 00001223457999999764432            689999999999999999988


Q ss_pred             C-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          703 G-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       703 ~-~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      . .+.++|||||+|.+.++|.+|+.+|||..|+++.+.|.....
T Consensus       305 ~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~  348 (352)
T TIGR01661       305 LTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN  348 (352)
T ss_pred             CCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence            6 888999999999999999999999999999999999988764

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

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

Probab=100.00  E-value=1.3e-34  Score=339.89  Aligned_cols=164  Identities=24%  Similarity=0.332  Sum_probs=143.6

Q ss_pred             ccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       458 ~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ++....++|||||||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.
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            344567899999999999999999999999863322      234555678999999999999999999998 9999999


Q ss_pred             cccccccCCccce---------------eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecC
Q 002280          537 GSILKIKRPKEFV---------------EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVD  599 (943)
Q Consensus       537 Gr~LkV~rp~d~~---------------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~  599 (943)
                      |+.|+|.++....               ..+|||+|||..+++++|+++|+.||.|..++|.++.  +.++|||||+|.+
T Consensus       176 GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~  255 (612)
T TIGR01645       176 GRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNN  255 (612)
T ss_pred             cceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECC
Confidence            9999998765321               1289999999999999999999999999999999884  4679999999999


Q ss_pred             hhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          600 QLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       600 ~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .++|.+|+..|||..|+|+.|.|.++.+
T Consensus       256 ~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       256 LQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             HHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            9999999999999999999999988653

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.

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

Probab=100.00  E-value=1.3e-33  Score=334.90  Aligned_cols=177  Identities=13%  Similarity=0.183  Sum_probs=132.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc------------CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF------------GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  619 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f------------G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~  619 (943)
                      +|||+|||+.+++++|.++|..|            +.|..+.+    ...+|||||+|.+.++|..|| .|+|+.|.|+.
T Consensus       177 ~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~----~~~kg~afVeF~~~e~A~~Al-~l~g~~~~g~~  251 (509)
T TIGR01642       177 RLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI----NKEKNFAFLEFRTVEEATFAM-ALDSIIYSNVF  251 (509)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE----CCCCCEEEEEeCCHHHHhhhh-cCCCeEeeCce
Confidence            89999999999999999999985            23444443    235899999999999999999 59999999999


Q ss_pred             EEEEEcccCCCcCCCC----CCCCCCCCCCC----cCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCC
Q 002280          620 LTAVQAVLDGSIMDNS----GNPPFHGIPKH----ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARF  691 (943)
Q Consensus       620 L~V~~A~~~~~~~~~~----~~~~~~~ip~~----~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskF  691 (943)
                      |.|.............    ...+-...+..    .......+...|+|.||....+.            ++|+++|+.|
T Consensus       252 l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~------------~~l~~~f~~~  319 (509)
T TIGR01642       252 LKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGE------------DQIKELLESF  319 (509)
T ss_pred             eEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCH------------HHHHHHHHhc
Confidence            9997543222111000    00000000000    00111234678999999653332            6899999999


Q ss_pred             CCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          692 GSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       692 G~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      |.|+.|.|+++ ..|..+|||||+|.+.++|..|+..|||..|+++.+.|..+..
T Consensus       320 G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~  374 (509)
T TIGR01642       320 GDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACV  374 (509)
T ss_pred             CCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECcc
Confidence            99999999887 4678899999999999999999999999999999998877654

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

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

Probab=100.00  E-value=1.4e-34  Score=323.50  Aligned_cols=272  Identities=20%  Similarity=0.271  Sum_probs=223.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ++..+|||+-.|+..+++.+|.+||+.+|.+..   +   ..|.+.+.+.++|.|||+|.+.+.+..||.|.|+.+.|.+
T Consensus       176 ERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrd---V---riI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~p  249 (549)
T KOG0147|consen  176 ERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRD---V---RIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVP  249 (549)
T ss_pred             HHhHHHHHHHHHhhcCCchhHHHHHHhhcCcce---e---EeeccccchhhcceeEEEEecccchhhHhhhcCCcccCce
Confidence            567889999999999999999999999886332   2   3566777889999999999999999999999999999999


Q ss_pred             ccccCCc----------------cceeE--EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecC
Q 002280          540 LKIKRPK----------------EFVEV--AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVD  599 (943)
Q Consensus       540 LkV~rp~----------------d~~~~--~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~  599 (943)
                      |.|+.+.                ....+  .|||+||.+++++++|+.+|+.||.|..|.+.++  ++.++||+||+|.+
T Consensus       250 v~vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~  329 (549)
T KOG0147|consen  250 VIVQLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVN  329 (549)
T ss_pred             eEecccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEec
Confidence            9998432                11111  4899999999999999999999999999999998  78889999999999


Q ss_pred             hhHHHHHHHHhCCCccCCeEEEEEEcccC-----C-Cc-------------CCCCC-----------C------------
Q 002280          600 QLVTPKAIAGLNGLKVGGQVLTAVQAVLD-----G-SI-------------MDNSG-----------N------------  637 (943)
Q Consensus       600 ~e~A~kAl~~LnG~~~~gr~L~V~~A~~~-----~-~~-------------~~~~~-----------~------------  637 (943)
                      .++|.+|+.+|||..|.|+.|+|......     + .+             .+..+           .            
T Consensus       330 ~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l  409 (549)
T KOG0147|consen  330 KEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISAL  409 (549)
T ss_pred             HHHHHHHHHHhccceecCceEEEEEeeeecccccccccccccchhhccccccccccHHHHHHHHhccCCccccchhhhHH
Confidence            99999999999999999999998753210     0 00             00000           0            


Q ss_pred             ---------------CC-CCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEec
Q 002280          638 ---------------PP-FHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK  701 (943)
Q Consensus       638 ---------------~~-~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r  701 (943)
                                     .. -...|..+.|....||.|+.|.|||+|.+.+  .+.|-++|.+||.++|++||+|.+|.|.+
T Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~lL~nMFdpstet--e~n~d~eI~edV~Eec~k~g~v~hi~vd~  487 (549)
T KOG0147|consen  410 LLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLLLSNMFDPSTET--EPNWDQEIREDVIEECGKHGKVCHIFVDK  487 (549)
T ss_pred             HhccccchHHhhcCCcCccccCccccccccCCccHHHHHhhcCCccccc--CcchhhHHHHHHHHHHHhcCCeeEEEEcc
Confidence                           00 0011222223334789999999999999985  78889999999999999999999999998


Q ss_pred             CCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          702 YGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       702 ~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      +..    |++||.|.+.+.|..|+.+|||+||.++.|++...
T Consensus       488 ns~----g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~  525 (549)
T KOG0147|consen  488 NSA----GCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYL  525 (549)
T ss_pred             CCC----ceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEe
Confidence            653    67799999999999999999999999999997654

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

Probab=100.00  E-value=5.8e-32  Score=318.00  Aligned_cols=254  Identities=19%  Similarity=0.157  Sum_probs=198.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH---ccCCccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~---LnG~~l~Gr  538 (943)
                      ++++|||+|||+.+|+++|+++|++||            .|..+.+-.+++||||+|.+.++|..|+.   +++..|.|+
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 PSPVVHVRNLPQDVVEADLVEALIPFG------------PVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQ   68 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcC------------CeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCe
Confidence            368999999999999999999999998            45556555689999999999999999998   478999999


Q ss_pred             cccccCCcc------c----------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhH
Q 002280          539 ILKIKRPKE------F----------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLV  602 (943)
Q Consensus       539 ~LkV~rp~d------~----------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~  602 (943)
                      +|.|.....      .          ...+|||+||++.+++++|+++|+.||.|..|.|+++.  ++|+|||+|.+.++
T Consensus        69 ~l~v~~s~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~--~~~~afVef~~~~~  146 (481)
T TIGR01649        69 PAFFNYSTSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKN--NVFQALVEFESVNS  146 (481)
T ss_pred             EEEEEecCCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecC--CceEEEEEECCHHH
Confidence            999974321      0          01279999999999999999999999999999987753  35799999999999


Q ss_pred             HHHHHHHhCCCccCC--eEEEEEEcccCCCcC-----C--------CCC-------------CCCC--------------
Q 002280          603 TPKAIAGLNGLKVGG--QVLTAVQAVLDGSIM-----D--------NSG-------------NPPF--------------  640 (943)
Q Consensus       603 A~kAl~~LnG~~~~g--r~L~V~~A~~~~~~~-----~--------~~~-------------~~~~--------------  640 (943)
                      |.+|+..|||..|.|  +.|.|.++.+.....     .        ..+             ...+              
T Consensus       147 A~~A~~~Lng~~i~~~~~~l~v~~sk~~~l~v~~~~~~s~dyt~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  226 (481)
T TIGR01649       147 AQHAKAALNGADIYNGCCTLKIEYAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPSSYGHDGYS  226 (481)
T ss_pred             HHHHHHHhcCCcccCCceEEEEEEecCCCceeEecccCCCCCcCCCCCCCCCCCcCccccccccccccCCCccCCCcccc
Confidence            999999999999854  588888876532110     0        000             0000              


Q ss_pred             -C-----------CCCC--------------Cc--------CCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHH
Q 002280          641 -H-----------GIPK--------------HA--------LPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRL  686 (943)
Q Consensus       641 -~-----------~ip~--------------~~--------~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre  686 (943)
                       .           .++.              ..        .+....++.+|+|.||... .+   +       .++|++
T Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL~~~-~v---t-------~~~L~~  295 (481)
T TIGR01649       227 SHGGPLAPLAGGDRMGPPHGPPSRYRPAYEAAPLAPAISSYGPAGGGPGSVLMVSGLHQE-KV---N-------CDRLFN  295 (481)
T ss_pred             cCCCCCCcccccccCCCcccCCCCCcccccccccCccccccCCCCCCCCCEEEEeCCCCC-CC---C-------HHHHHH
Confidence             0           0000              00        0011347789999999631 11   1       268999


Q ss_pred             HhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          687 ECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       687 ~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      +|+.||.|.+|+|+++.    +|+|||+|.+.++|..|+..|||..|.++.+.|..+.
T Consensus       296 lF~~yG~V~~vki~~~~----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~  349 (481)
T TIGR01649       296 LFCVYGNVERVKFMKNK----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSK  349 (481)
T ss_pred             HHHhcCCeEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence            99999999999999863    5899999999999999999999999999999997653

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=99.98  E-value=2.6e-31  Score=312.08  Aligned_cols=172  Identities=15%  Similarity=0.193  Sum_probs=142.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+.....
T Consensus       109 rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p  188 (612)
T TIGR01645       109 RVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMP  188 (612)
T ss_pred             EEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccccc
Confidence            8999999999999999999999999999999887  56789999999999999999999999999999999998543211


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      ...      +...    ...........|+|.||....+            .++|+++|++||.|++|.|+++. .+..+
T Consensus       189 ~a~------~~~~----~~~~~~~~~~rLfVgnLp~~vt------------eedLk~lFs~FG~I~svrl~~D~~tgksK  246 (612)
T TIGR01645       189 QAQ------PIID----MVQEEAKKFNRIYVASVHPDLS------------ETDIKSVFEAFGEIVKCQLARAPTGRGHK  246 (612)
T ss_pred             ccc------cccc----cccccccccceEEeecCCCCCC------------HHHHHHHHhhcCCeeEEEEEecCCCCCcC
Confidence            100      0000    0000112356799999964322            26899999999999999999875 56789


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      |||||+|.+.++|.+|+..|||..|+++.+.|...+.
T Consensus       247 GfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       247 GYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             CeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            9999999999999999999999999999999988875

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.

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

Probab=99.98  E-value=4.5e-31  Score=269.83  Aligned_cols=265  Identities=18%  Similarity=0.250  Sum_probs=215.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ....|+|..||.++|+++|+.+|...|      .|+.+++|.+..+|++-||+||.|.++++|++|+. |||..|..++|
T Consensus        40 skTNLIvNYLPQ~MTqdE~rSLF~SiG------eiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTI  113 (360)
T KOG0145|consen   40 SKTNLIVNYLPQNMTQDELRSLFGSIG------EIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTI  113 (360)
T ss_pred             ccceeeeeecccccCHHHHHHHhhccc------ceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceE
Confidence            345799999999999999999997644      56666788999999999999999999999999999 99999999999


Q ss_pred             cccC--Ccc--ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCc
Q 002280          541 KIKR--PKE--FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLK  614 (943)
Q Consensus       541 kV~r--p~d--~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~  614 (943)
                      +|..  |..  .....|||.+||..+|..+|.++|++||.|..-+|+.|  ++.++|.+||.|....+|+.||..|||..
T Consensus       114 KVSyARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~  193 (360)
T KOG0145|consen  114 KVSYARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQK  193 (360)
T ss_pred             EEEeccCChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCC
Confidence            9984  442  22349999999999999999999999999988777777  67789999999999999999999999998


Q ss_pred             cCCe--EEEEEEcccCCCcCCCC--------------CC-----------------------CC-----CCCCCCCcCCC
Q 002280          615 VGGQ--VLTAVQAVLDGSIMDNS--------------GN-----------------------PP-----FHGIPKHALPL  650 (943)
Q Consensus       615 ~~gr--~L~V~~A~~~~~~~~~~--------------~~-----------------------~~-----~~~ip~~~~~~  650 (943)
                      -.|.  +|.|.+|..........              +.                       .|     +.++.....+.
T Consensus       194 P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~  273 (360)
T KOG0145|consen  194 PSGCTEPITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPG  273 (360)
T ss_pred             CCCCCCCeEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCC
Confidence            8664  79999885432211000              00                       00     00011111222


Q ss_pred             CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCC-CCcceeEEEEeCCHHHHHHHHHHhC
Q 002280          651 LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-SNISTIQACEGNENTASAGVGQNLT  729 (943)
Q Consensus       651 ~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~-g~~~G~~FVeF~~~e~A~~Ai~~Ln  729 (943)
                      ......||+|+||-...+.            .-|.++|.+||.|.+|+|.++.+ ..++|||||.+.+.++|..||..||
T Consensus       274 ~~~~g~ciFvYNLspd~de------------~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLN  341 (360)
T KOG0145|consen  274 GPGGGWCIFVYNLSPDADE------------SILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLN  341 (360)
T ss_pred             CCCCeeEEEEEecCCCchH------------hHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhc
Confidence            3445789999999664443            24678899999999999999965 7799999999999999999999999


Q ss_pred             CCccCCCceEEEEec
Q 002280          730 NDETNEKGERLEEVT  744 (943)
Q Consensus       730 Gr~~~~k~~~v~~~~  744 (943)
                      |..++++.+.|+-..
T Consensus       342 Gy~lg~rvLQVsFKt  356 (360)
T KOG0145|consen  342 GYRLGDRVLQVSFKT  356 (360)
T ss_pred             CccccceEEEEEEec
Confidence            999999999887654

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

Probab=99.97  E-value=3.1e-30  Score=309.67  Aligned_cols=261  Identities=16%  Similarity=0.178  Sum_probs=209.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||.++|+++|+++|+.||.+..+       .|.....+.++|||||+|.+.++|..|+. |||..+.|+.|.
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            4579999999999999999999999864332       22222356789999999999999999999 999999999999


Q ss_pred             ccCCccc---------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          542 IKRPKEF---------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       542 V~rp~d~---------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      |......         ...+|||+|||..+++++|+++|+.||.|..+.+..+ .+.++|||||+|.+.++|.+|+..|+
T Consensus       161 v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~  240 (562)
T TIGR01628       161 VGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMN  240 (562)
T ss_pred             EeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhC
Confidence            8643211         1127999999999999999999999999999999887 45679999999999999999999999


Q ss_pred             CCccC----CeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHH
Q 002280          612 GLKVG----GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLE  687 (943)
Q Consensus       612 G~~~~----gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~  687 (943)
                      |..|.    |+.|.|.++........... ..+......  .........|+|.||....+            .++|+++
T Consensus       241 g~~i~~~~~g~~l~v~~a~~k~er~~~~~-~~~~~~~~~--~~~~~~~~~l~V~nl~~~~~------------~~~L~~~  305 (562)
T TIGR01628       241 GKKIGLAKEGKKLYVGRAQKRAEREAELR-RKFEELQQE--RKMKAQGVNLYVKNLDDTVT------------DEKLREL  305 (562)
T ss_pred             CcEecccccceeeEeecccChhhhHHHHH-hhHHhhhhh--hhcccCCCEEEEeCCCCccC------------HHHHHHH
Confidence            99999    99999988755432210000 000000000  00123456799999865333            2689999


Q ss_pred             hcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          688 CARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       688 fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      |++||.|++|+|+.+..|..+|||||+|.+.++|.+|+..|||..|+++.+.|..+..
T Consensus       306 F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~  363 (562)
T TIGR01628       306 FSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQR  363 (562)
T ss_pred             HHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccC
Confidence            9999999999999998899999999999999999999999999999999999987654

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

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

Probab=99.97  E-value=2e-29  Score=295.90  Aligned_cols=239  Identities=15%  Similarity=0.214  Sum_probs=194.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc-ccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS-GSI  539 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~-Gr~  539 (943)
                      ..++|||+|||+++||++|+++|++||.+..+      .++++ .++.++|||||+|.+.++|..||. ||+..|. |+.
T Consensus        57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~v------rl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~  129 (578)
T TIGR01648        57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYEL------RLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRL  129 (578)
T ss_pred             CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEE------EEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcc
Confidence            35799999999999999999999999864432      23445 678999999999999999999999 9998884 788


Q ss_pred             ccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCC-eeEEEEEe---cCCCCCCEEEEeecChhHHHHHHHHhCC--C
Q 002280          540 LKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEV---NEDHEEPCAFIEYVDQLVTPKAIAGLNG--L  613 (943)
Q Consensus       540 LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~-I~~v~l~~---d~~~skG~aFVeF~~~e~A~kAl~~LnG--~  613 (943)
                      |.|....+  ..+|||+|||..+++++|.++|++++. +..+.+..   +...++|||||+|.+.++|..|+..|+.  .
T Consensus       130 l~V~~S~~--~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki  207 (578)
T TIGR01648       130 LGVCISVD--NCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRI  207 (578)
T ss_pred             cccccccc--CceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccce
Confidence            87765543  238999999999999999999999863 33433322   2345799999999999999999988864  4


Q ss_pred             ccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCC--
Q 002280          614 KVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARF--  691 (943)
Q Consensus       614 ~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskF--  691 (943)
                      .+.|+.|.|.++.+......                ......++|+|.||....+.            ++|+++|++|  
T Consensus       208 ~l~Gr~I~VdwA~p~~~~d~----------------~~~~~~k~LfVgNL~~~~te------------e~L~~~F~~f~~  259 (578)
T TIGR01648       208 QLWGHVIAVDWAEPEEEVDE----------------DVMAKVKILYVRNLMTTTTE------------EIIEKSFSEFKP  259 (578)
T ss_pred             EecCceEEEEeecccccccc----------------cccccccEEEEeCCCCCCCH------------HHHHHHHHhcCC
Confidence            67899999999876432110                01124678999999653332            6789999999  


Q ss_pred             CCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          692 GSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       692 G~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |.|+.|.+++       +||||+|.+.++|.+|+..|||..|.++.+.|..+.
T Consensus       260 G~I~rV~~~r-------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Ak  305 (578)
T TIGR01648       260 GKVERVKKIR-------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAK  305 (578)
T ss_pred             CceEEEEeec-------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            9999998864       489999999999999999999999999999998764

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=99.96  E-value=4.6e-29  Score=272.18  Aligned_cols=240  Identities=18%  Similarity=0.201  Sum_probs=198.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc-ccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-SGS  538 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l-~Gr  538 (943)
                      ...+.||||.||.++.|++|.-||+..|.+..+      .++++...|.++|||||.|.+.++|+.|+. ||+.+| .|+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~el------RLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK  154 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYEL------RLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGK  154 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeE------EEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCC
Confidence            446789999999999999999999998875443      367787889999999999999999999999 999877 788


Q ss_pred             cccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCC-eeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHhC-C-
Q 002280          539 ILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGLN-G-  612 (943)
Q Consensus       539 ~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~-I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~Ln-G-  612 (943)
                      .|.|.-.-+  ..+|||||||..+++++|.+.|++.++ |..|.|...   ...++|||||+|.+...|..|-..|- | 
T Consensus       155 ~igvc~Sva--n~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~  232 (506)
T KOG0117|consen  155 LLGVCVSVA--NCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGK  232 (506)
T ss_pred             EeEEEEeee--cceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCc
Confidence            888763322  129999999999999999999999874 555666544   44689999999999999999987764 3 


Q ss_pred             CccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCC
Q 002280          613 LKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG  692 (943)
Q Consensus       613 ~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG  692 (943)
                      +++.|..+.|.||.|.......                .-...++|+|.||....+            .|.|+.+|+.||
T Consensus       233 ~klwgn~~tVdWAep~~e~ded----------------~ms~VKvLYVRNL~~~tT------------eE~lk~~F~~~G  284 (506)
T KOG0117|consen  233 IKLWGNAITVDWAEPEEEPDED----------------TMSKVKVLYVRNLMESTT------------EETLKKLFNEFG  284 (506)
T ss_pred             eeecCCcceeeccCcccCCChh----------------hhhheeeeeeeccchhhh------------HHHHHHHHHhcc
Confidence            5689999999999875432111                123468999999964322            267889999999


Q ss_pred             CeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          693 SVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       693 ~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      .|+.|+.+++       ||||.|.+.++|.+||+.|||.++.+.++.+..+
T Consensus       285 ~veRVkk~rD-------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLA  328 (506)
T KOG0117|consen  285 KVERVKKPRD-------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLA  328 (506)
T ss_pred             ceEEeecccc-------eeEEeecchHHHHHHHHHhcCceecCceEEEEec
Confidence            9999999975       8999999999999999999999999999988665

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

Probab=99.96  E-value=1.6e-28  Score=260.61  Aligned_cols=267  Identities=22%  Similarity=0.333  Sum_probs=211.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .--++||||.|.+.+-|+.|+..|.+||.+..++      -..+..|++.+|||||||.-+|.|..|++ |||..++|+.
T Consensus       111 aiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSIn------MSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRN  184 (544)
T KOG0124|consen  111 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSIN------MSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRN  184 (544)
T ss_pred             HHhHheeeeeeEEEechHHHHhhccCCCCcceee------cccccccccccceEEEEEeCcHHHHHHHHHhccccccCcc
Confidence            3457999999999999999999999999754432      33556789999999999999999999999 9999999999


Q ss_pred             ccccCCccceeE---------------EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhH
Q 002280          540 LKIKRPKEFVEV---------------AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLV  602 (943)
Q Consensus       540 LkV~rp~d~~~~---------------~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~  602 (943)
                      |+|.+|......               +|||..+.++++++||+.+|+.||+|..|.|.+.+  ..++||+||+|.+..+
T Consensus       185 iKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs  264 (544)
T KOG0124|consen  185 IKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQS  264 (544)
T ss_pred             ccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccc
Confidence            999999864332               99999999999999999999999999999998873  4579999999999999


Q ss_pred             HHHHHHHhCCCccCCeEEEEEEcccCCCc------------------------------------CCCCC----------
Q 002280          603 TPKAIAGLNGLKVGGQVLTAVQAVLDGSI------------------------------------MDNSG----------  636 (943)
Q Consensus       603 A~kAl~~LnG~~~~gr~L~V~~A~~~~~~------------------------------------~~~~~----------  636 (943)
                      ...|+..||=+.++|+-|+|..+......                                    ....+          
T Consensus       265 ~~eAiasMNlFDLGGQyLRVGk~vTPP~aLl~Pat~s~~P~aaaVAaAAaTAKi~A~eAvAg~avlg~~G~~~~vSpA~~  344 (544)
T KOG0124|consen  265 QSEAIASMNLFDLGGQYLRVGKCVTPPDALLQPATVSAIPAAAAVAAAAATAKIMAAEAVAGSAVLGTVGAPGLVSPAPR  344 (544)
T ss_pred             hHHHhhhcchhhcccceEecccccCCCchhcCCCCcccCchHHHHHHHHHHHHHHHHHHhccCCcccccCCccccCcccc
Confidence            99999999999999999999754211100                                    00000          


Q ss_pred             -----------------------CCCC-CCCCCC------cCCC------------------------------------
Q 002280          637 -----------------------NPPF-HGIPKH------ALPL------------------------------------  650 (943)
Q Consensus       637 -----------------------~~~~-~~ip~~------~~~~------------------------------------  650 (943)
                                             ..|. +.+|..      ..|.                                    
T Consensus       345 aa~p~~~l~qa~~a~~~pgvi~~vtP~~P~iP~~i~p~g~v~P~LA~ppT~g~L~kkkeKe~eelqpkl~~~~~L~~QE~  424 (544)
T KOG0124|consen  345 AAQPLGTLPQAVMAAQAPGVITGVTPARPPIPVTIPPVGVVNPILASPPTLGLLEKKKEKEEEELQPKLERPEMLSEQEH  424 (544)
T ss_pred             ccCCCCCccccchhccCCceeccCCCCCCCCCccCCCcceechhhcCCCchhhcchhhhhhHhhhcccccCHHHhhhhhC
Confidence                                   0000 001100      0000                                    


Q ss_pred             -----------------CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCC-----cc
Q 002280          651 -----------------LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN-----IS  708 (943)
Q Consensus       651 -----------------~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~-----~~  708 (943)
                                       -...++|++|.|+++|.++   |    +.+..+|+++|.+||.|..|.|.....+.     +-
T Consensus       425 msI~G~sARhlvMqkLmR~~~S~VivLRNMV~P~Di---D----e~LegEi~EECgKfG~V~rViI~nekq~e~edaeii  497 (544)
T KOG0124|consen  425 MSISGSSARHLVMQKLMRKQESTVIVLRNMVDPKDI---D----EDLEGEITEECGKFGAVNRVIIYNEKQGEEEDAEII  497 (544)
T ss_pred             ccccCccHHHHHHHHHhccccCcEEEEeccCChhhh---h----hHHHHHHHHHHhcccceeEEEEEecccccccchhhh
Confidence                             0224789999999999997   2    33557899999999999999998754333     23


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEE
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERL  740 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v  740 (943)
                      -.+||+|....++.+|+++|+||+|++++.+.
T Consensus       498 VKIFVefS~~~e~~rak~ALdGRfFgGr~VvA  529 (544)
T KOG0124|consen  498 VKIFVEFSIASETHRAKQALDGRFFGGRKVVA  529 (544)
T ss_pred             heeeeeechhhHHHHHHHhhccceecCceeeh
Confidence            36799999999999999999999999998664

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

Probab=99.96  E-value=7.4e-27  Score=274.87  Aligned_cols=246  Identities=21%  Similarity=0.289  Sum_probs=186.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee--ecCCCeeeEEeCCHHHHHHHHH-ccCCccccc--
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI--QREKGQAFVEFLTAEDASAALC-CDGCSFSGS--  538 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~--~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr--  538 (943)
                      .+|||+||++.+|+++|.++|+.||.+            ..+.+  ....++|||+|.+.++|.+|+. |||..|.|.  
T Consensus        97 ~~v~v~nl~~~vt~~~L~~~F~~~G~V------------~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~  164 (481)
T TIGR01649        97 LRVIVENPMYPITLDVLYQIFNPYGKV------------LRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNGCC  164 (481)
T ss_pred             EEEEEcCCCCCCCHHHHHHHHhccCCE------------EEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCCce
Confidence            479999999999999999999999853            33333  2234699999999999999999 999988652  


Q ss_pred             cccccCCc--------------c---------------------------------------------------------
Q 002280          539 ILKIKRPK--------------E---------------------------------------------------------  547 (943)
Q Consensus       539 ~LkV~rp~--------------d---------------------------------------------------------  547 (943)
                      .|+|...+              +                                                         
T Consensus       165 ~l~v~~sk~~~l~v~~~~~~s~dyt~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  244 (481)
T TIGR01649       165 TLKIEYAKPTRLNVKYNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPSSYGHDGYSSHGGPLAPLAGGDRMGPP  244 (481)
T ss_pred             EEEEEEecCCCceeEecccCCCCCcCCCCCCCCCCCcCccccccccccccCCCccCCCcccccCCCCCCcccccccCCCc
Confidence            33332100              0                                                         


Q ss_pred             ----------------------c------eeEEEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeec
Q 002280          548 ----------------------F------VEVAIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYV  598 (943)
Q Consensus       548 ----------------------~------~~~~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~  598 (943)
                                            +      ...+|||+|||. .+++++|.++|+.||.|..|+|+.+   .+|+|||+|.
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~---~~g~afV~f~  321 (481)
T TIGR01649       245 HGPPSRYRPAYEAAPLAPAISSYGPAGGGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN---KKETALIEMA  321 (481)
T ss_pred             ccCCCCCcccccccccCccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC---CCCEEEEEEC
Confidence                                  0      012899999998 6999999999999999999999886   5799999999


Q ss_pred             ChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCC-----CCC---CCCCC-------CCC-cCCCCCCCceEEEecc
Q 002280          599 DQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNS-----GNP---PFHGI-------PKH-ALPLLKKPTEVLKLKN  662 (943)
Q Consensus       599 ~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~-----~~~---~~~~i-------p~~-~~~~~~~ps~vL~L~N  662 (943)
                      +.++|..|+..|||..|.|++|.|.++..........     +..   .+.+.       +.. .......|+.+|+|.|
T Consensus       322 ~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~N  401 (481)
T TIGR01649       322 DPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSN  401 (481)
T ss_pred             CHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEec
Confidence            9999999999999999999999999875432211100     000   00000       000 0001235789999999


Q ss_pred             CCCcCCCCCCChHHHHHHHHHHHHHhcCCCC--eEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc
Q 002280          663 VFNPEGFSSLSELEVEEVLEDVRLECARFGS--VKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKG  737 (943)
Q Consensus       663 lv~~~~l~~i~~~~~~ei~eDlre~fskFG~--V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~  737 (943)
                      |....+            .++|+++|+.||.  |+.|+|.....+ .+++|||+|.+.++|..|+..|||..|.++.
T Consensus       402 Lp~~~t------------ee~L~~lF~~~G~~~i~~ik~~~~~~~-~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~  465 (481)
T TIGR01649       402 IPLSVS------------EEDLKELFAENGVHKVKKFKFFPKDNE-RSKMGLLEWESVEDAVEALIALNHHQLNEPN  465 (481)
T ss_pred             CCCCCC------------HHHHHHHHHhcCCccceEEEEecCCCC-cceeEEEEcCCHHHHHHHHHHhcCCccCCCC
Confidence            954322            2688999999998  899998654433 5789999999999999999999999999886

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).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.95  E-value=2.1e-26  Score=260.51  Aligned_cols=161  Identities=11%  Similarity=0.161  Sum_probs=139.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||+|..|+|+++  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.++.+..
T Consensus         5 ~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~~~~   84 (352)
T TIGR01661         5 NLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSS   84 (352)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccc
Confidence            8999999999999999999999999999999987  45689999999999999999999999999999999999886532


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      .                     ......|+|.||......            ++|+.+|++||.|..+.|+.+. .+..+
T Consensus        85 ~---------------------~~~~~~l~v~~l~~~~~~------------~~l~~~f~~~G~i~~~~~~~~~~~~~~~  131 (352)
T TIGR01661        85 D---------------------SIKGANLYVSGLPKTMTQ------------HELESIFSPFGQIITSRILSDNVTGLSK  131 (352)
T ss_pred             c---------------------ccccceEEECCccccCCH------------HHHHHHHhccCCEEEEEEEecCCCCCcC
Confidence            1                     112456899999654332            6889999999999999998764 56788


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      |||||+|.+.++|..|++.|||..+.+....+.....
T Consensus       132 g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a  168 (352)
T TIGR01661       132 GVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFA  168 (352)
T ss_pred             cEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence            9999999999999999999999999887666555544

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=99.94  E-value=2.7e-26  Score=258.83  Aligned_cols=241  Identities=18%  Similarity=0.209  Sum_probs=197.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      .||||   +.+||.+|.++|+++|.+..+      ..|.+. +  +-|||||.|.++++|++||. ||...+.|++|+|.
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            58999   999999999999998865442      356666 5  99999999999999999999 99999999999998


Q ss_pred             CCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          544 RPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       544 rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +..... ..|||.||+..++...|.++|+.||.|.+|+|..+...++|| ||+|.+.+.|.+|+..|||..+.|+.|.|.
T Consensus        71 ~s~rd~-~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg  148 (369)
T KOG0123|consen   71 WSQRDP-SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVG  148 (369)
T ss_pred             hhccCC-ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEe
Confidence            654322 249999999999999999999999999999999998779999 999999999999999999999999999998


Q ss_pred             EcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC
Q 002280          624 QAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG  703 (943)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~  703 (943)
                      .............. ..           ..-+. +++.|..  .+.   +       .+.|...|..||.|.++.|+.+.
T Consensus       149 ~~~~~~er~~~~~~-~~-----------~~~t~-v~vk~~~--~~~---~-------~~~l~~~f~~~g~i~s~~v~~~~  203 (369)
T KOG0123|consen  149 LFERKEEREAPLGE-YK-----------KRFTN-VYVKNLE--EDS---T-------DEELKDLFSAYGSITSVAVMRDS  203 (369)
T ss_pred             eccchhhhcccccc-hh-----------hhhhh-hheeccc--ccc---c-------hHHHHHhhcccCcceEEEEeecC
Confidence            77554332211111 00           01122 2233332  111   1       14678899999999999999999


Q ss_pred             CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          704 DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       704 ~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      .+...+|+||.|.+.++|..|+..|+|..+.++.+-|....
T Consensus       204 ~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aq  244 (369)
T KOG0123|consen  204 IGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQ  244 (369)
T ss_pred             CCCCCCccceeecChhHHHHHHHhccCCcCCccceeecccc
Confidence            99999999999999999999999999999998888776554

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

Probab=99.94  E-value=2.3e-25  Score=247.63  Aligned_cols=264  Identities=18%  Similarity=0.201  Sum_probs=202.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      .||||++||+.+|.++|-++|+.+|.+.+.      ..|.+...+.++|||||.|.-.++++.|+. +++..|.|+.|.|
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 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHA------VVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNV   79 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCccee------EEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccc
Confidence            699999999999999999999998854331      122333445789999999999999999999 9999999999988


Q ss_pred             cCCcc--------------------c--------e--eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC-CCCC
Q 002280          543 KRPKE--------------------F--------V--EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEP  591 (943)
Q Consensus       543 ~rp~d--------------------~--------~--~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~-~skG  591 (943)
                      ..++.                    .        .  ..+|.|.|||+.+...+|..+|+.||.|..|.|++..+ .-.|
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            73210                    0        0  11899999999999999999999999999999987643 3469


Q ss_pred             EEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCC-----------------------C--------------
Q 002280          592 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMD-----------------------N--------------  634 (943)
Q Consensus       592 ~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~-----------------------~--------------  634 (943)
                      ||||+|....+|.+||..|||.+|.|++|.|.||.+...-..                       .              
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            999999999999999999999999999999999876431100                       0              


Q ss_pred             ------CCCC--------------CCCCC--CCCc-----C-----CCCCCCceEEEeccCCCcCCCCCCChHHHHHHHH
Q 002280          635 ------SGNP--------------PFHGI--PKHA-----L-----PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLE  682 (943)
Q Consensus       635 ------~~~~--------------~~~~i--p~~~-----~-----~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~e  682 (943)
                            +++.              .+...  +...     .     +.......+|+|.||....+.            +
T Consensus       240 edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tE------------E  307 (678)
T KOG0127|consen  240 EDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTRENITEGKTVFVRNLPFDTTE------------E  307 (678)
T ss_pred             cccccccccchhhhccccccccccccccccccccCcccchhccccccccccccceEEEecCCccccH------------H
Confidence                  0000              00000  0000     0     001112378999999764443            6


Q ss_pred             HHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHh-----CC-CccCCCceEEEEecc
Q 002280          683 DVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNL-----TN-DETNEKGERLEEVTD  745 (943)
Q Consensus       683 Dlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~L-----nG-r~~~~k~~~v~~~~~  745 (943)
                      .|.++|++||.|..+.|+.+ .++.+.|.|||.|.+..+|.+||.+.     .| ..+.++.++|..++-
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            78999999999999998876 57889999999999999999999988     23 566788888877764

>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=2.9e-25  Score=229.35  Aligned_cols=224  Identities=17%  Similarity=0.213  Sum_probs=173.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      +..++|||||||...+||+-|..||++.|.            |..|.+         .|.                   .
T Consensus         3 ~~~prtlyvgnld~~vte~~i~~lf~qig~------------v~~~k~---------i~~-------------------e   42 (321)
T KOG0148|consen    3 SDEPRTLYVGNLDSTVTEDFIATLFNQIGS------------VTKTKV---------IFD-------------------E   42 (321)
T ss_pred             CCCCceEEeeccChhhHHHHHHHHHHhccc------------ccccee---------ehh-------------------h
Confidence            456899999999999999999999999774            333322         111                   2


Q ss_pred             ccccCCcc---------ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHH
Q 002280          540 LKIKRPKE---------FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIA  608 (943)
Q Consensus       540 LkV~rp~d---------~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~  608 (943)
                      |+|.++..         ...-.+||+.|...++-++|++.|.+||.|..++|++|  ++.++||+||.|-+.++|+.||.
T Consensus        43 ~~v~wa~~p~nQsk~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~  122 (321)
T KOG0148|consen   43 LKVNWATAPGNQSKPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQ  122 (321)
T ss_pred             hccccccCcccCCCCccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHH
Confidence            33332211         11228999999999999999999999999999999999  56789999999999999999999


Q ss_pred             HhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHh
Q 002280          609 GLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLEC  688 (943)
Q Consensus       609 ~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~f  688 (943)
                      .|||.+|++|.|+-.||..+....... ...|..+--    ......+.+++.|+..  .|   +       .++|+..|
T Consensus       123 ~MnGqWlG~R~IRTNWATRKp~e~n~~-~ltfdeV~N----Qssp~NtsVY~G~I~~--~l---t-------e~~mr~~F  185 (321)
T KOG0148|consen  123 QMNGQWLGRRTIRTNWATRKPSEMNGK-PLTFDEVYN----QSSPDNTSVYVGNIAS--GL---T-------EDLMRQTF  185 (321)
T ss_pred             HhCCeeeccceeeccccccCccccCCC-CccHHHHhc----cCCCCCceEEeCCcCc--cc---c-------HHHHHHhc
Confidence            999999999999999997655221111 111111111    1123355678888865  23   1       25789999


Q ss_pred             cCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          689 ARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       689 skFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      ++||.|..|.|.+     .+||+||.|++.|.|..||-.|||.++++...+-.+.-.
T Consensus       186 s~fG~I~EVRvFk-----~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  186 SPFGPIQEVRVFK-----DQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             ccCCcceEEEEec-----ccceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence            9999999999999     489999999999999999999999999998877666543

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

Probab=99.92  E-value=2.4e-24  Score=234.35  Aligned_cols=162  Identities=24%  Similarity=0.340  Sum_probs=137.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC-Ccccc-
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSG-  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG-~~l~G-  537 (943)
                      ...-+||||.||..+||.+|+++|++||.+..+      ++++|..++.++|||||.|.+.++|..|+. |++ +.|-| 
T Consensus        32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~ei------nl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~  105 (510)
T KOG0144|consen   32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEI------NLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGM  105 (510)
T ss_pred             chhhhheeccCCccccHHHHHHHHHHhCceeEE------EeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCC
Confidence            445689999999999999999999999975443      467888999999999999999999999999 777 56766 


Q ss_pred             -ccccccCCcc---c--eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHh
Q 002280          538 -SILKIKRPKE---F--VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGL  610 (943)
Q Consensus       538 -r~LkV~rp~d---~--~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~L  610 (943)
                       .+|.|..+..   .  ...+|||+-|+..++|.+|+++|++||.|++|.|+++. +.++|||||+|.+.+.|..||++|
T Consensus       106 ~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~  185 (510)
T KOG0144|consen  106 HHPVQVKYADGERERIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKAL  185 (510)
T ss_pred             CcceeecccchhhhccccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhh
Confidence             4566654321   1  13399999999999999999999999999999999984 679999999999999999999999


Q ss_pred             CCCc-cCC--eEEEEEEcccC
Q 002280          611 NGLK-VGG--QVLTAVQAVLD  628 (943)
Q Consensus       611 nG~~-~~g--r~L~V~~A~~~  628 (943)
                      ||.. +.|  .+|.|.+|.+.
T Consensus       186 ng~~tmeGcs~PLVVkFADtq  206 (510)
T KOG0144|consen  186 NGTQTMEGCSQPLVVKFADTQ  206 (510)
T ss_pred             ccceeeccCCCceEEEecccC
Confidence            9954 554  58999987643

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.92  E-value=9.4e-24  Score=236.98  Aligned_cols=164  Identities=20%  Similarity=0.276  Sum_probs=141.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+++|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||+ |||+.|.++
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            3457899999999999999999999998863322      244556778899999999999999999998 999999999


Q ss_pred             cccccCCcc----ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCC
Q 002280          539 ILKIKRPKE----FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNG  612 (943)
Q Consensus       539 ~LkV~rp~d----~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG  612 (943)
                      +|+|.....    ....+|||+|||..+++++|+++|++||.|..+.|+.+  ++..+|||||+|.+.++|.+||..||+
T Consensus       178 ~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng  257 (346)
T TIGR01659       178 RLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNN  257 (346)
T ss_pred             eeeeecccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC
Confidence            999986542    22338999999999999999999999999999999887  456789999999999999999999999


Q ss_pred             CccCC--eEEEEEEcccCC
Q 002280          613 LKVGG--QVLTAVQAVLDG  629 (943)
Q Consensus       613 ~~~~g--r~L~V~~A~~~~  629 (943)
                      ..|.+  ++|.|.+|....
T Consensus       258 ~~~~g~~~~l~V~~a~~~~  276 (346)
T TIGR01659       258 VIPEGGSQPLTVRLAEEHG  276 (346)
T ss_pred             CccCCCceeEEEEECCccc
Confidence            98865  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).

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

Probab=99.91  E-value=2.1e-24  Score=229.42  Aligned_cols=172  Identities=16%  Similarity=0.197  Sum_probs=136.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +||||.|.+.+.|+.|+..|..||+|++|.+..|  ++.++|||||+|+-++.|+.|++.|||..++|+.|+|.+...-.
T Consensus       115 RvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmp  194 (544)
T KOG0124|consen  115 RVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMP  194 (544)
T ss_pred             heeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCc
Confidence            8999999999999999999999999999998777  57789999999999999999999999999999999997331100


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCC-Ccc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS-NIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g-~~~  708 (943)
                      +         .+.+-.. .+...+.-.-+++..+..  +|   +       .+||+.+|+.||+|+.|++.+.+.+ ..+
T Consensus       195 Q---------AQpiID~-vqeeAk~fnRiYVaSvHp--DL---S-------e~DiKSVFEAFG~I~~C~LAr~pt~~~Hk  252 (544)
T KOG0124|consen  195 Q---------AQPIIDM-VQEEAKKFNRIYVASVHP--DL---S-------ETDIKSVFEAFGEIVKCQLARAPTGRGHK  252 (544)
T ss_pred             c---------cchHHHH-HHHHHHhhheEEeeecCC--Cc---c-------HHHHHHHHHhhcceeeEEeeccCCCCCcc
Confidence            0         0000000 000012233456666544  33   1       2689999999999999999998654 589


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      |||||+|.+...-..|+..||-..+++..+.|..++.
T Consensus       253 GyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vT  289 (544)
T KOG0124|consen  253 GYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  289 (544)
T ss_pred             ceeeEEeccccchHHHhhhcchhhcccceEecccccC
Confidence            9999999999999999999999999998888766653

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

Probab=99.89  E-value=6.6e-22  Score=220.32  Aligned_cols=188  Identities=13%  Similarity=0.206  Sum_probs=153.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC--CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~--~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||++||+.++.++|.++|+.+|+|..+.++.+.+  .++||+||+|.-.++++.|+..+++..|+|+.|.|..|.+.
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R   85 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKR   85 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccccc
Confidence            4899999999999999999999999999999998865  46999999999999999999999999999999999988765


Q ss_pred             CCcCC-CCCCC-----CCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC
Q 002280          629 GSIMD-NSGNP-----PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  702 (943)
Q Consensus       629 ~~~~~-~~~~~-----~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~  702 (943)
                      ..... ..+..     ++.+ +.........|-.-|+|.||....--            .||+.+|+.||.|..|.||+.
T Consensus        86 ~r~e~~~~~e~~~veK~~~q-~~~~k~~v~~~k~rLIIRNLPf~~k~------------~dLk~vFs~~G~V~Ei~IP~k  152 (678)
T KOG0127|consen   86 ARSEEVEKGENKAVEKPIEQ-KRPTKAKVDLPKWRLIIRNLPFKCKK------------PDLKNVFSNFGKVVEIVIPRK  152 (678)
T ss_pred             ccchhcccccchhhhccccc-CCcchhhccCccceEEeecCCcccCc------------HHHHHHHhhcceEEEEEcccC
Confidence            43321 11110     1111 00001112334677999999764443            589999999999999999999


Q ss_pred             CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecccccccc
Q 002280          703 GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKN  751 (943)
Q Consensus       703 ~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~~~~~  751 (943)
                      ..|...|||||.|.+..+|..|+..|||..|.++++-|.++++......
T Consensus       153 ~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~  201 (678)
T KOG0127|consen  153 KDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYED  201 (678)
T ss_pred             CCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccccccc
Confidence            8888889999999999999999999999999999999999987554443

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

Probab=99.89  E-value=1e-22  Score=229.89  Aligned_cols=260  Identities=16%  Similarity=0.166  Sum_probs=203.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +.+..|||.||++.++...|.++|+.||.+..+.       |.... ..++|| ||+|.+.++|.+|+. +||..+.|+.
T Consensus        74 rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~k-------v~~~~-~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kk  144 (369)
T KOG0123|consen   74 RDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCK-------VATDE-NGSKGY-FVQFESEESAKKAIEKLNGMLLNGKK  144 (369)
T ss_pred             cCCceeeecCCCcccCcHHHHHHHHhhcCeeEEE-------EEEcC-CCceee-EEEeCCHHHHHHHHHHhcCcccCCCe
Confidence            3344499999999999999999999999654421       11111 238999 999999999999999 9999999999


Q ss_pred             ccccCCcc--------ce----eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHH
Q 002280          540 LKIKRPKE--------FV----EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKA  606 (943)
Q Consensus       540 LkV~rp~d--------~~----~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kA  606 (943)
                      |.|.....        ..    ...++|.|++..++++.|.++|+.||.|.++.++.+. +.++||+||.|.+.++|..|
T Consensus       145 i~vg~~~~~~er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~a  224 (369)
T KOG0123|consen  145 IYVGLFERKEEREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKA  224 (369)
T ss_pred             eEEeeccchhhhcccccchhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHH
Confidence            99874221        11    1178999999999999999999999999999999884 45799999999999999999


Q ss_pred             HHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHH
Q 002280          607 IAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRL  686 (943)
Q Consensus       607 l~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre  686 (943)
                      +..|+|..+.+..+.|..+..........- .++..  ....+........|++.|+......            +.|+.
T Consensus       225 v~~l~~~~~~~~~~~V~~aqkk~e~~~~l~-~~~~~--~~~~~~~~~~~~nl~vknld~~~~~------------e~L~~  289 (369)
T KOG0123|consen  225 VETLNGKIFGDKELYVGRAQKKSEREAELK-RKFEQ--EFAKRSVSLQGANLYVKNLDETLSD------------EKLRK  289 (369)
T ss_pred             HHhccCCcCCccceeecccccchhhHHHHh-hhhHh--hhhhccccccccccccccCccccch------------hHHHH
Confidence            999999999999999987755221110000 00000  0011111234556888885432221            56888


Q ss_pred             HhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          687 ECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       687 ~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      .|+.||+|.++.|..+..|...||+||+|...++|..|+..|||+.+.++.+.+.+..
T Consensus       290 ~f~~~GeI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~n~~~i~~k~l~vav~q  347 (369)
T KOG0123|consen  290 IFSSFGEITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEMNGRLIGGKPLYVAVAQ  347 (369)
T ss_pred             HHhcccceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhhChhhhcCCchhhhHHh
Confidence            9999999999999999999999999999999999999999999999999998876554

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

Probab=99.88  E-value=8.7e-22  Score=231.81  Aligned_cols=184  Identities=17%  Similarity=0.189  Sum_probs=138.2

Q ss_pred             HHHHHHHHH-ccCCcccccccccc---CCccce------eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCC
Q 002280          521 AEDASAALC-CDGCSFSGSILKIK---RPKEFV------EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHE  589 (943)
Q Consensus       521 ~edA~~Al~-LnG~~l~Gr~LkV~---rp~d~~------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~s  589 (943)
                      .+.|.+||. ++|..+........   .|..|.      ..+|||+|||..+++++|.++|++||.|..|+|++| ++.+
T Consensus        19 ~~~a~~a~~~~~gy~~~~~~g~r~~g~Pp~~~~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~s   98 (578)
T TIGR01648        19 DEAALKALLERTGYTLVQENGQRKYGGPPPGWSGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQN   98 (578)
T ss_pred             cHHHHHHHHHhhCccccccCCcccCCCCCCcccCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCc
Confidence            467777877 88865533322211   222221      239999999999999999999999999999999988 5678


Q ss_pred             CCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCC
Q 002280          590 EPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEG  668 (943)
Q Consensus       590 kG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~  668 (943)
                      +|||||+|.+.++|.+||..|||..|. |+.|.|..+                           ...+.|+|.||....+
T Consensus        99 RGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S---------------------------~~~~rLFVgNLP~~~T  151 (578)
T TIGR01648        99 RGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS---------------------------VDNCRLFVGGIPKNKK  151 (578)
T ss_pred             cceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc---------------------------ccCceeEeecCCcchh
Confidence            999999999999999999999999884 677666532                           1245699999865433


Q ss_pred             CCCCChHHHHHHHHHHHHHhcCCCC-eEEEEEecC--CCCCcceeEEEEeCCHHHHHHHHHHhCCC--ccCCCceEEEEe
Q 002280          669 FSSLSELEVEEVLEDVRLECARFGS-VKSVNVVKY--GDSNISTIQACEGNENTASAGVGQNLTND--ETNEKGERLEEV  743 (943)
Q Consensus       669 l~~i~~~~~~ei~eDlre~fskFG~-V~~V~I~r~--~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr--~~~~k~~~v~~~  743 (943)
                      .            ++|.++|++|+. |+.+.+...  ..+..+||+||+|.+.++|..|+..|+..  .+.++.+.|.+.
T Consensus       152 e------------eeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA  219 (578)
T TIGR01648       152 R------------EEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWA  219 (578)
T ss_pred             h------------HHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEee
Confidence            2            678889999863 555554332  34567899999999999999999988643  456777766554

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.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.88  E-value=6.9e-22  Score=221.98  Aligned_cols=160  Identities=13%  Similarity=0.185  Sum_probs=137.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|+.||.|..|+|+.+  ++.++|||||+|.+.++|.+||..|||..|.+++|.|.++.+..
T Consensus       109 ~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~  188 (346)
T TIGR01659       109 NLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGG  188 (346)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccc
Confidence            9999999999999999999999999999999887  45679999999999999999999999999999999999876532


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      ..                     .....|+|.||....+            .++|+++|++||.|+.|.|+++. .+..+
T Consensus       189 ~~---------------------~~~~~lfV~nLp~~vt------------ee~L~~~F~~fG~V~~v~i~~d~~tg~~k  235 (346)
T TIGR01659       189 ES---------------------IKDTNLYVTNLPRTIT------------DDQLDTIFGKYGQIVQKNILRDKLTGTPR  235 (346)
T ss_pred             cc---------------------cccceeEEeCCCCccc------------HHHHHHHHHhcCCEEEEEEeecCCCCccc
Confidence            11                     1234689999954322            26899999999999999999874 77888


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      ||+||+|.+.++|++|++.|||..|.+....+.+.+
T Consensus       236 G~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~  271 (346)
T TIGR01659       236 GVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL  271 (346)
T ss_pred             eEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence            999999999999999999999999977655554444

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).

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

Probab=99.86  E-value=3.7e-21  Score=221.15  Aligned_cols=251  Identities=17%  Similarity=0.177  Sum_probs=196.8

Q ss_pred             cCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       459 ~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ..+..+.|+|+|||..+..++|..+|..||.            |..+.+....-.|+|+|.++.+|..|+. |....+..
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            4566789999999999999999999999884            2233333223359999999999999999 88877766


Q ss_pred             ccccccCCc-c-ce--e-------------------------------------------------E-EEEEecCCCCCC
Q 002280          538 SILKIKRPK-E-FV--E-------------------------------------------------V-AIFIGGISRTLS  563 (943)
Q Consensus       538 r~LkV~rp~-d-~~--~-------------------------------------------------~-~LfV~NLp~~~t  563 (943)
                      .+|.+.+.. + +.  +                                                 . +|||.||++.++
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            665444211 0 00  0                                                 0 499999999999


Q ss_pred             HHHHHHHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCC
Q 002280          564 SKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNP  638 (943)
Q Consensus       564 eedL~e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~  638 (943)
                      .++|...|.++|.|.++.|..-.+     .+.|||||+|.+.++|+.|+..|+|..|.|+.|.|.++.....   .... 
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 LEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPA---STVG-  604 (725)
T ss_pred             hhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccc---cccc-
Confidence            999999999999999998865422     3679999999999999999999999999999999998861111   0100 


Q ss_pred             CCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCC
Q 002280          639 PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNE  717 (943)
Q Consensus       639 ~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~  717 (943)
                        ...+      .......|+|.|+.....            ..+|+.+|.+||.|.+|.||+. ..+..+||+||+|.+
T Consensus       605 --K~~~------~kk~~tKIlVRNipFeAt------------~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t  664 (725)
T KOG0110|consen  605 --KKKS------KKKKGTKILVRNIPFEAT------------KREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLT  664 (725)
T ss_pred             --cccc------cccccceeeeeccchHHH------------HHHHHHHHhcccceeeeccchhhcchhhccceeeeccC
Confidence              0000      112345678888865444            4789999999999999999998 455678999999999


Q ss_pred             HHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          718 NTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       718 ~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      +.+|.+|+.+|.+..+-++-+++.++-+
T Consensus       665 ~~ea~nA~~al~STHlyGRrLVLEwA~~  692 (725)
T KOG0110|consen  665 PREAKNAFDALGSTHLYGRRLVLEWAKS  692 (725)
T ss_pred             cHHHHHHHHhhcccceechhhheehhcc
Confidence            9999999999999999999999988754

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

Probab=99.85  E-value=7e-21  Score=197.10  Aligned_cols=157  Identities=20%  Similarity=0.326  Sum_probs=140.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...--||||.|...++-+.|++.|.+||.+..      ...|.+..|+++||||||-|.+.++|+.||. |||.-|++|.
T Consensus        60 ~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~------akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~  133 (321)
T KOG0148|consen   60 NQHFHVFVGDLSPEIDNEKLREAFAPFGEVSD------AKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRT  133 (321)
T ss_pred             ccceeEEehhcchhcchHHHHHHhcccccccc------ceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccce
Confidence            34557999999999999999999999987543      3467889999999999999999999999999 9999999999


Q ss_pred             ccccCCcc-----------c----e-----eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecC
Q 002280          540 LKIKRPKE-----------F----V-----EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD  599 (943)
Q Consensus       540 LkV~rp~d-----------~----~-----~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~  599 (943)
                      |+-.++.-           |    +     ..+||||||+..+++++|++.|+.||+|..|+|.++    +||+||.|.+
T Consensus       134 IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~----qGYaFVrF~t  209 (321)
T KOG0148|consen  134 IRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD----QGYAFVRFET  209 (321)
T ss_pred             eeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc----cceEEEEecc
Confidence            99875431           1    0     019999999999999999999999999999999997    8999999999


Q ss_pred             hhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          600 QLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       600 ~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|.|..||..+||..|+|+.++|.|-..
T Consensus       210 kEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  210 KEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             hhhHHHHHHHhcCceeCceEEEEecccc
Confidence            9999999999999999999999998644

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

Probab=99.84  E-value=3.2e-20  Score=211.83  Aligned_cols=165  Identities=18%  Similarity=0.240  Sum_probs=131.3

Q ss_pred             cccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       457 ~~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      +........+||++||..++++++++++..||...++      ..|.+..+|.++||||++|.++..+..|++ |||+.+
T Consensus       283 t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f------~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~l  356 (500)
T KOG0120|consen  283 TDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAF------RLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQL  356 (500)
T ss_pred             cCcccccchhhhccCcCccCHHHHHHHHHhcccchhh------eeecccccccccceeeeeeeCCcchhhhhcccchhhh
Confidence            3445567899999999999999999999998864433      477888889999999999999999999999 999999


Q ss_pred             ccccccccCCcc-------cee----E-----------------EEEEecCCC--CC-CH-------HHHHHHHhhcCCe
Q 002280          536 SGSILKIKRPKE-------FVE----V-----------------AIFIGGISR--TL-SS-------KMVMEIVCAFGPL  577 (943)
Q Consensus       536 ~Gr~LkV~rp~d-------~~~----~-----------------~LfV~NLp~--~~-te-------edL~e~Fs~fG~I  577 (943)
                      ++++|.|+++-.       +..    .                 .|++.|+-.  .+ .+       |+|+..|++||.|
T Consensus       357 gd~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v  436 (500)
T KOG0120|consen  357 GDKKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAV  436 (500)
T ss_pred             cCceeEeehhhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCce
Confidence            999999885321       111    1                 222222210  00 01       6678899999999


Q ss_pred             eEEEEEec-C----CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          578 KAYHFEVN-E----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       578 ~~v~l~~d-~----~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|.+.++ .    ..+.|.+||+|.+.+++++|+++|+|.+|.|++|.+.|..+
T Consensus       437 ~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde  491 (500)
T KOG0120|consen  437 RSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE  491 (500)
T ss_pred             eEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence            99999877 2    35689999999999999999999999999999999988644

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

Probab=99.84  E-value=1.1e-20  Score=186.13  Aligned_cols=164  Identities=23%  Similarity=0.305  Sum_probs=138.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +..|||||||+..+|++.|.++|-++|.++.+..      -.+..+...+|||||+|.+.|+|+.|+. ||++.|.|++|
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~i------PkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpI   81 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHI------PKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPI   81 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeec------chhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCcee
Confidence            4579999999999999999999988775433211      1233456689999999999999999999 99999999999


Q ss_pred             cccCCccc-----eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEE-EEEec--CCCCCCEEEEeecChhHHHHHHHHhCC
Q 002280          541 KIKRPKEF-----VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAY-HFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNG  612 (943)
Q Consensus       541 kV~rp~d~-----~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v-~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG  612 (943)
                      +|......     ...+|||+||.+.+++..|.+.|+.||+|... .++++  ++..+|++||-|.+.+.+.+|+..|||
T Consensus        82 rv~kas~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ng  161 (203)
T KOG0131|consen   82 RVNKASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNG  161 (203)
T ss_pred             EEEecccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhcc
Confidence            99987632     22399999999999999999999999998663 55555  457799999999999999999999999


Q ss_pred             CccCCeEEEEEEcccCCCc
Q 002280          613 LKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       613 ~~~~gr~L~V~~A~~~~~~  631 (943)
                      +.+.+++|+|.++......
T Consensus       162 q~l~nr~itv~ya~k~~~k  180 (203)
T KOG0131|consen  162 QYLCNRPITVSYAFKKDTK  180 (203)
T ss_pred             chhcCCceEEEEEEecCCC
Confidence            9999999999999765543

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

Probab=99.83  E-value=1.8e-19  Score=185.06  Aligned_cols=168  Identities=10%  Similarity=0.143  Sum_probs=142.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .|.|.-||..+|+++|+.+|...|.|++|+|++|  ++.+-||+||-|.++.+|++|+..|||..+..+.|+|.+|-|..
T Consensus        43 NLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs  122 (360)
T KOG0145|consen   43 NLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSS  122 (360)
T ss_pred             eeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCCh
Confidence            7888999999999999999999999999999999  67889999999999999999999999999999999999997754


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~  708 (943)
                      ..                     ....-|++..+......            .+|.++|++||.|..-.|..+ -+|.++
T Consensus       123 ~~---------------------Ik~aNLYvSGlPktMtq------------kelE~iFs~fGrIItSRiL~dqvtg~sr  169 (360)
T KOG0145|consen  123 DS---------------------IKDANLYVSGLPKTMTQ------------KELEQIFSPFGRIITSRILVDQVTGLSR  169 (360)
T ss_pred             hh---------------------hcccceEEecCCccchH------------HHHHHHHHHhhhhhhhhhhhhcccceec
Confidence            32                     12334777777543332            567788999999987777665 578899


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccccccccc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKSIKNN  752 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~~~~~~  752 (943)
                      |.|||.|+...+|+.||..|||..-.+-+..+.....+.++...
T Consensus       170 GVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t  213 (360)
T KOG0145|consen  170 GVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKT  213 (360)
T ss_pred             ceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCccccc
Confidence            99999999999999999999999999888888777766544433

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

Probab=99.79  E-value=1e-18  Score=191.77  Aligned_cols=160  Identities=18%  Similarity=0.265  Sum_probs=134.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCccee-eeeeecCCCeeeEEeCCHHHHHHHHH--ccC-Ccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI-GCVIQREKGQAFVEFLTAEDASAALC--CDG-CSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~-~~~~~~skGyAFVeF~s~edA~~Al~--LnG-~~l  535 (943)
                      +-.+++|||||||.++++++|++.|++.+.  |+..|-   +.. -....+++|||||+|.+..+|..|-.  ++| +.+
T Consensus       161 Svan~RLFiG~IPK~k~keeIlee~~kVte--GVvdVi---vy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~kl  235 (506)
T KOG0117|consen  161 SVANCRLFIGNIPKTKKKEEILEEMKKVTE--GVVDVI---VYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKL  235 (506)
T ss_pred             eeecceeEeccCCccccHHHHHHHHHhhCC--CeeEEE---EecCccccccccceEEEEeecchhHHHHHhhccCCceee
Confidence            445789999999999999999999988763  332221   000 01346789999999999999999988  777 799


Q ss_pred             ccccccccCCcccee---------EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHH
Q 002280          536 SGSILKIKRPKEFVE---------VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA  606 (943)
Q Consensus       536 ~Gr~LkV~rp~d~~~---------~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kA  606 (943)
                      .|..+.|.|+.....         ..|||.||+..+|+|.|+++|+.||.|..|+.++|      ||||+|.+.++|.+|
T Consensus       236 wgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD------YaFVHf~eR~davkA  309 (506)
T KOG0117|consen  236 WGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD------YAFVHFAEREDAVKA  309 (506)
T ss_pred             cCCcceeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc------eeEEeecchHHHHHH
Confidence            999999987542111         18999999999999999999999999999987766      999999999999999


Q ss_pred             HHHhCCCccCCeEEEEEEcccCCC
Q 002280          607 IAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       607 l~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      ++.|||..|.|..|.|..|.|...
T Consensus       310 m~~~ngkeldG~~iEvtLAKP~~k  333 (506)
T KOG0117|consen  310 MKETNGKELDGSPIEVTLAKPVDK  333 (506)
T ss_pred             HHHhcCceecCceEEEEecCChhh
Confidence            999999999999999999988553

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

Probab=99.78  E-value=6e-19  Score=192.55  Aligned_cols=156  Identities=17%  Similarity=0.219  Sum_probs=128.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCc-cC--CeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLK-VG--GQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~-~~--gr~L~V~~A~  626 (943)
                      +|||+.||..++|.||+++|++||.|-.|.|++|  ++.++|||||.|.+.++|.+|+.+|+.++ |.  ..+|.|.+|.
T Consensus        36 KlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad  115 (510)
T KOG0144|consen   36 KLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYAD  115 (510)
T ss_pred             hheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccc
Confidence            9999999999999999999999999999999999  56789999999999999999999999866 33  3578888775


Q ss_pred             cCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCC
Q 002280          627 LDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN  706 (943)
Q Consensus       627 ~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~  706 (943)
                      ......                    ...+.|+|.-+-....            +.+|+++|++||.|+.|.|.+++.+.
T Consensus       116 ~E~er~--------------------~~e~KLFvg~lsK~~t------------e~evr~iFs~fG~Ied~~ilrd~~~~  163 (510)
T KOG0144|consen  116 GERERI--------------------VEERKLFVGMLSKQCT------------ENEVREIFSRFGHIEDCYILRDPDGL  163 (510)
T ss_pred             hhhhcc--------------------ccchhhhhhhcccccc------------HHHHHHHHHhhCccchhhheeccccc
Confidence            433221                    0123344443322222            36799999999999999999999999


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCceE
Q 002280          707 ISTIQACEGNENTASAGVGQNLTNDETNEKGER  739 (943)
Q Consensus       707 ~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~  739 (943)
                      ++|++||+|.+.+-|..||++|||...-..|..
T Consensus       164 sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~  196 (510)
T KOG0144|consen  164 SRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQ  196 (510)
T ss_pred             ccceeEEEEehHHHHHHHHHhhccceeeccCCC
Confidence            999999999999999999999999887655543

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

Probab=99.76  E-value=5.2e-18  Score=195.47  Aligned_cols=237  Identities=21%  Similarity=0.237  Sum_probs=175.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..-+|||.|||+.+|+++|+.+|                             |||.|..++.|-+|.. ++|+.+.|+.|
T Consensus       226 etgrlf~RNLpyt~~eed~~~lf-----------------------------a~v~~~~~~~avka~~~~D~k~fqgrml  276 (725)
T KOG0110|consen  226 ETGRLFVRNLPYTSTEEDLLKLF-----------------------------AFVTFMFPEHAVKAYSELDGKVFQGRML  276 (725)
T ss_pred             hhhhhhhccCCccccHHHHHHhh-----------------------------HHHhhhhhHHHHhhhhhcccccccccee
Confidence            35689999999999999999888                             6788888888888887 88888888877


Q ss_pred             cccCCc--------------------------------cceeE-------------------------------------
Q 002280          541 KIKRPK--------------------------------EFVEV-------------------------------------  551 (943)
Q Consensus       541 kV~rp~--------------------------------d~~~~-------------------------------------  551 (943)
                      .|-...                                .|+..                                     
T Consensus       277 hvlp~~~k~~~~~~~~~~~~~~k~~ke~~rk~~~~~~~~wn~l~~~~~ava~~~a~k~~v~k~~i~d~~~~gsavr~al~  356 (725)
T KOG0110|consen  277 HVLPSKEKSTAKEDASELGSDYKKEKELKRKAASASFHSWNTLFMGANAVAGILAQKLGVEKSRILDGSLSGSAVRLALG  356 (725)
T ss_pred             eecCcchhhhhhhhHhhcCCcHHHHHHhccccchhcceecccccccccHHHHHHHHHhCCeeeeeechhhcchHHHHHHH
Confidence            764211                                01000                                     


Q ss_pred             ------------------------------EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChh
Q 002280          552 ------------------------------AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQL  601 (943)
Q Consensus       552 ------------------------------~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e  601 (943)
                                                    .|+|+|||..+..++|..+|..||.|..+.++ .   +--.++|+|.++.
T Consensus       357 etr~~~e~~~~~ee~gV~l~~F~~~~rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp-~---~G~~aiv~fl~p~  432 (725)
T KOG0110|consen  357 ETRVVQEVRRFFEENGVKLDAFSQAERSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLP-P---GGTGAIVEFLNPL  432 (725)
T ss_pred             HhhhchhhhhhHHhhCcccccchhhhhhcceeeeccCccccccHHHHHHhhcccccceeecC-c---ccceeeeeecCcc
Confidence                                          78999999999999999999999999988543 2   2235999999999


Q ss_pred             HHHHHHHHhCCCccCCeEEEEEEcccCCCc-------CCCCCCCC------------CCCCCCCcCCC-----------C
Q 002280          602 VTPKAIAGLNGLKVGGQVLTAVQAVLDGSI-------MDNSGNPP------------FHGIPKHALPL-----------L  651 (943)
Q Consensus       602 ~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~-------~~~~~~~~------------~~~ip~~~~~~-----------~  651 (943)
                      +|.+|+..|....+...++.+.++......       .......+            -.++.....+.           .
T Consensus       433 eAr~Afrklaysr~k~~plyle~aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~  512 (725)
T KOG0110|consen  433 EARKAFRKLAYSRFKSAPLYLEWAPEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDE  512 (725)
T ss_pred             chHHHHHHhchhhhccCccccccChhhhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhcc
Confidence            999999999999888888877765321111       11100000            00111111100           1


Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCC----CcceeEEEEeCCHHHHHHHHHH
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS----NISTIQACEGNENTASAGVGQN  727 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g----~~~G~~FVeF~~~e~A~~Ai~~  727 (943)
                      ..++. |++.|+.....+            +++..+|.++|.|.+|.|......    .+.|||||+|.+.++|+.|+++
T Consensus       513 ~~~t~-lfvkNlnf~Tt~------------e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~  579 (725)
T KOG0110|consen  513 ETETK-LFVKNLNFDTTL------------EDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKA  579 (725)
T ss_pred             ccchh-hhhhcCCcccch------------hHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHH
Confidence            12222 888888765555            789999999999999999876433    3569999999999999999999


Q ss_pred             hCCCccCCCceEEEEec
Q 002280          728 LTNDETNEKGERLEEVT  744 (943)
Q Consensus       728 LnGr~~~~k~~~v~~~~  744 (943)
                      |+|..+.+..+.+..+-
T Consensus       580 lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  580 LQGTVLDGHKLELKISE  596 (725)
T ss_pred             hcCceecCceEEEEecc
Confidence            99999999988886654

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

Probab=99.73  E-value=6.3e-17  Score=173.13  Aligned_cols=188  Identities=16%  Similarity=0.217  Sum_probs=147.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE--------EEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~--------v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      .|||.|||..+|.+++.++|+++|.|..        |+|.++. |.-+|-|.|.|...+++..|+..|++..|.|+.|.|
T Consensus       136 ~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rV  215 (382)
T KOG1548|consen  136 SVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRV  215 (382)
T ss_pred             eEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEEE
Confidence            7999999999999999999999998865        7777774 556999999999999999999999999999999999


Q ss_pred             EEcccCCCc---CCCCCC---CC-----------CCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHH
Q 002280          623 VQAVLDGSI---MDNSGN---PP-----------FHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVR  685 (943)
Q Consensus       623 ~~A~~~~~~---~~~~~~---~~-----------~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlr  685 (943)
                      ..|......   +.....   .+           +.-.|...-+......++|+|.|||+++++. -++..+.+|.+||+
T Consensus       216 erAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~-~~~~l~~dlkedl~  294 (382)
T KOG1548|consen  216 ERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFE-KNPDLLNDLKEDLT  294 (382)
T ss_pred             ehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhc-cCHHHHHHHHHHHH
Confidence            988532211   000000   00           0001111112223457899999999999984 55577899999999


Q ss_pred             HHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          686 LECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       686 e~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      ++|++||.|.+|.|....+   .|.+-|.|.+.++|..||+.|+||+|.++.+....-
T Consensus       295 eec~K~G~v~~vvv~d~hP---dGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~  349 (382)
T KOG1548|consen  295 EECEKFGQVRKVVVYDRHP---DGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIW  349 (382)
T ss_pred             HHHHHhCCcceEEEeccCC---CceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEe
Confidence            9999999999999985433   233469999999999999999999999999887554

>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=5.4e-18  Score=177.34  Aligned_cols=144  Identities=21%  Similarity=0.345  Sum_probs=129.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      -+|||||||..+++.+|+.+|++||+            |+.|.+-  |.||||...+...|..|+. |+|..|.|..|.|
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygk------------VlECDIv--KNYgFVHiEdktaaedairNLhgYtLhg~nInV   68 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGK------------VLECDIV--KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINV   68 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCc------------eEeeeee--cccceEEeecccccHHHHhhcccceecceEEEE
Confidence            37999999999999999999999985            3444433  7899999999999999999 9999999999999


Q ss_pred             cCCccc--eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          543 KRPKEF--VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       543 ~rp~d~--~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      ...+..  ...+|+|+||.+.++.++|+..|++||+|..+.|+++      |+||.|.-.++|..|+..|+|..|.|+.+
T Consensus        69 eaSksKsk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd------y~fvh~d~~eda~~air~l~~~~~~gk~m  142 (346)
T KOG0109|consen   69 EASKSKSKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD------YAFVHFDRAEDAVEAIRGLDNTEFQGKRM  142 (346)
T ss_pred             EeccccCCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc------eeEEEEeeccchHHHHhccccccccccee
Confidence            976654  3449999999999999999999999999999999765      99999999999999999999999999999


Q ss_pred             EEEEccc
Q 002280          621 TAVQAVL  627 (943)
Q Consensus       621 ~V~~A~~  627 (943)
                      .|+.+..
T Consensus       143 ~vq~sts  149 (346)
T KOG0109|consen  143 HVQLSTS  149 (346)
T ss_pred             eeeeecc
Confidence            9987644

>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=4.7e-17  Score=170.39  Aligned_cols=148  Identities=18%  Similarity=0.272  Sum_probs=131.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||||||..+++.+|+.+|++||+|..|.|+++      ||||..++...|..||..|||..|.|..|.|..+..+   
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK---   74 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYGKVLECDIVKN------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK---   74 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhCceEeeeeecc------cceEEeecccccHHHHhhcccceecceEEEEEecccc---
Confidence            7999999999999999999999999999999876      9999999999999999999999999999999865332   


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeE
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQ  711 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~  711 (943)
                                          .+++..|.+.|+.+...-            .+|+..|++||.|..|.|.+       +|+
T Consensus        75 --------------------sk~stkl~vgNis~tctn------------~ElRa~fe~ygpviecdivk-------dy~  115 (346)
T KOG0109|consen   75 --------------------SKASTKLHVGNISPTCTN------------QELRAKFEKYGPVIECDIVK-------DYA  115 (346)
T ss_pred             --------------------CCCccccccCCCCccccC------------HHHhhhhcccCCceeeeeec-------cee
Confidence                                235667888998664443            46899999999999999976       578


Q ss_pred             EEEeCCHHHHHHHHHHhCCCccCCCceEEEEecccc
Q 002280          712 ACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHK  747 (943)
Q Consensus       712 FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~  747 (943)
                      ||.|+..++|..|+..|+|++|.++.+.|+.+++.-
T Consensus       116 fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrl  151 (346)
T KOG0109|consen  116 FVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL  151 (346)
T ss_pred             EEEEeeccchHHHHhcccccccccceeeeeeecccc
Confidence            999999999999999999999999999999988744

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

Probab=99.69  E-value=1.7e-16  Score=156.61  Aligned_cols=163  Identities=15%  Similarity=0.165  Sum_probs=134.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+||+..++++.|.++|-+.|+|..++++++  ++..+|||||+|.+.++|+-|++.||..++-|++|+|..+...
T Consensus        10 ~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~   89 (203)
T KOG0131|consen   10 ATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAH   89 (203)
T ss_pred             ceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecccc
Confidence            39999999999999999999999999999999988  4567999999999999999999999999999999999987521


Q ss_pred             CCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEE-EEecCC-CCC
Q 002280          629 GSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSV-NVVKYG-DSN  706 (943)
Q Consensus       629 ~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V-~I~r~~-~g~  706 (943)
                      ....                    ..+.-|++.||-..     +|+       .-|...|+.||.+... +|.+++ +|.
T Consensus        90 ~~nl--------------------~vganlfvgNLd~~-----vDe-------~~L~dtFsafG~l~~~P~i~rd~~tg~  137 (203)
T KOG0131|consen   90 QKNL--------------------DVGANLFVGNLDPE-----VDE-------KLLYDTFSAFGVLISPPKIMRDPDTGN  137 (203)
T ss_pred             cccc--------------------cccccccccccCcc-----hhH-------HHHHHHHHhccccccCCcccccccCCC
Confidence            1110                    11245778887441     222       2356669999987652 455654 578


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          707 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       707 ~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      .+|||||.|.+.+.+.+|+.+|||.-++.+.+++.....
T Consensus       138 ~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k  176 (203)
T KOG0131|consen  138 PKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK  176 (203)
T ss_pred             CCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence            888999999999999999999999999999999988764

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

Probab=99.66  E-value=5.7e-15  Score=160.72  Aligned_cols=256  Identities=18%  Similarity=0.229  Sum_probs=176.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC--cccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC--SFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~--~l~G  537 (943)
                      .+++.|.++|||+++||++|..++.+||.+            ..+.....+..|||+|.+.+.|...+. +..+  .+.|
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            356889999999999999999999999853            334444456689999999999988443 2221  3444


Q ss_pred             ccccccCCc------------------------------------cc--------eeEEEEEecCCCCCCHHHHHHHHhh
Q 002280          538 SILKIKRPK------------------------------------EF--------VEVAIFIGGISRTLSSKMVMEIVCA  573 (943)
Q Consensus       538 r~LkV~rp~------------------------------------d~--------~~~~LfV~NLp~~~teedL~e~Fs~  573 (943)
                      ++|-|+...                                    ..        .-..++|.|+-+.++-+-|..+|++
T Consensus        94 ~~~yiq~sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS~  173 (492)
T KOG1190|consen   94 QPIYIQYSNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVGNEDGPNPVLRTIIENMFYPVSLDVLHQVFSK  173 (492)
T ss_pred             cceeehhhhHHHHhccCchhhhhhhhHHhhhhcccccccccccccccccccCCCceeEEEEeccceeeeEHHHHHHHHhh
Confidence            444443110                                    00        0017889999999999999999999


Q ss_pred             cCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc--CCeEEEEEEcccCCCc---------------CC-CC
Q 002280          574 FGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV--GGQVLTAVQAVLDGSI---------------MD-NS  635 (943)
Q Consensus       574 fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~--~gr~L~V~~A~~~~~~---------------~~-~~  635 (943)
                      ||.|..|.-.  +..+.-.|.|+|.+.+.|..|..+|+|+.|  +.+.|++.++.-....               .. ..
T Consensus       174 fG~VlKIiTF--~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkSRDyTnp~LP~gd  251 (492)
T KOG1190|consen  174 FGFVLKIITF--TKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKSRDYTNPDLPVGD  251 (492)
T ss_pred             cceeEEEEEE--ecccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccccccccccCCCCCCCc
Confidence            9998765332  223444689999999999999999999987  4467777654211100               00 00


Q ss_pred             CCC--------CCC----------CCCCCc-----C-CCCCCC--ceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhc
Q 002280          636 GNP--------PFH----------GIPKHA-----L-PLLKKP--TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECA  689 (943)
Q Consensus       636 ~~~--------~~~----------~ip~~~-----~-~~~~~p--s~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fs  689 (943)
                      +.+        .+.          .+|...     . ...+.+  +.+|.+.|+... .   ++       .+-|..+|.
T Consensus       252 ~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~~~~~~~~~n~vllvsnln~~-~---VT-------~d~LftlFg  320 (492)
T KOG1190|consen  252 GQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAADGKIESPSANVVLLVSNLNEE-A---VT-------PDVLFTLFG  320 (492)
T ss_pred             cccccchhhhccccccccccCCcccCCccchhhcccccccccCCCceEEEEecCchh-c---cc-------hhHHHHHHh
Confidence            000        000          011000     0 112223  577888887421 1   12       255788999


Q ss_pred             CCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          690 RFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       690 kFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      -||.|..|+|..+..    --|.|+|.+...|.-|+..|+|..+-++.+.+..+-+
T Consensus       321 vYGdVqRVkil~nkk----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH  372 (492)
T KOG1190|consen  321 VYGDVQRVKILYNKK----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKH  372 (492)
T ss_pred             hhcceEEEEeeecCC----cceeeeecchhHHHHHHHHhhcceecCceEEEeeccC
Confidence            999999999998654    2368999999999999999999999999999888765

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

Probab=99.59  E-value=1.4e-13  Score=150.69  Aligned_cols=156  Identities=19%  Similarity=0.295  Sum_probs=122.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...|.+||.|||+++.+.+|++||..-.   |  .|.-. .+.--..++++|+|.|||.++|.+++|++ ||...+.|++
T Consensus        42 ~r~R~vfItNIpyd~rWqdLKdLvrekv---G--ev~yv-eLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~  115 (608)
T KOG4212|consen   42 ARDRSVFITNIPYDYRWQDLKDLVREKV---G--EVEYV-ELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRE  115 (608)
T ss_pred             cccceEEEecCcchhhhHhHHHHHHHhc---C--ceEee-eeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCce
Confidence            3456799999999999999999996632   1  11100 11222348899999999999999999999 9999999999


Q ss_pred             ccccCCcc-----c-----------------e------------------------------------------eE----
Q 002280          540 LKIKRPKE-----F-----------------V------------------------------------------EV----  551 (943)
Q Consensus       540 LkV~rp~d-----~-----------------~------------------------------------------~~----  551 (943)
                      |.|.--.+     |                 .                                          ..    
T Consensus       116 l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~  195 (608)
T KOG4212|consen  116 LVVKEDHDEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYN  195 (608)
T ss_pred             EEEeccCchhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhh
Confidence            99872111     0                 0                                          00    


Q ss_pred             ---------------------EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHH
Q 002280          552 ---------------------AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAG  609 (943)
Q Consensus       552 ---------------------~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~  609 (943)
                                           ++||.||.+.+....|.+.|.-.|.|..|.+-.+ .+.++|+|.++|..+-.|..||..
T Consensus       196 lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsm  275 (608)
T KOG4212|consen  196 LFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISM  275 (608)
T ss_pred             cccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHh
Confidence                                 8999999999999999999999999999888766 456799999999999999999999


Q ss_pred             hCCCccCCeEEEE
Q 002280          610 LNGLKVGGQVLTA  622 (943)
Q Consensus       610 LnG~~~~gr~L~V  622 (943)
                      |++.-+..++..+
T Consensus       276 l~~~g~~~~~~~~  288 (608)
T KOG4212|consen  276 LDRQGLFDRRMTV  288 (608)
T ss_pred             hccCCCcccccee
Confidence            9865544444433

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=99.52  E-value=1.6e-14  Score=158.56  Aligned_cols=164  Identities=17%  Similarity=0.246  Sum_probs=138.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ...+||||+|++.+|++.|+++|.+||.+...      ..+.+..+++++||+||+|.+++.+..+|...-..|.|+.|.
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 ESGKLFIGGLSWETTEESLREYFSQFGEVTDC------VVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVE   78 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeE------EEeccCCCCCcccccceecCCCcchheeecccccccCCcccc
Confidence            57899999999999999999999988864332      234455668999999999999999999998777888888888


Q ss_pred             ccCCccc----------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHH
Q 002280          542 IKRPKEF----------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAG  609 (943)
Q Consensus       542 V~rp~d~----------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~  609 (943)
                      +.+....          ...+|||++||..++++++++.|.+||.|..+.++.|.  ...+||+||.|.+.+.+.+++. 
T Consensus        79 ~k~av~r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-  157 (311)
T KOG4205|consen   79 PKRAVSREDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-  157 (311)
T ss_pred             ceeccCcccccccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-
Confidence            7753311          12299999999999999999999999999998888884  4569999999999999998886 


Q ss_pred             hCCCccCCeEEEEEEcccCCCcC
Q 002280          610 LNGLKVGGQVLTAVQAVLDGSIM  632 (943)
Q Consensus       610 LnG~~~~gr~L~V~~A~~~~~~~  632 (943)
                      ..-+.|.|+.+.|..|.|.....
T Consensus       158 ~~f~~~~gk~vevkrA~pk~~~~  180 (311)
T KOG4205|consen  158 QKFHDFNGKKVEVKRAIPKEVMQ  180 (311)
T ss_pred             cceeeecCceeeEeeccchhhcc
Confidence            66788999999999999877654

>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]

Probab=99.52  E-value=8e-14  Score=137.70  Aligned_cols=139  Identities=22%  Similarity=0.292  Sum_probs=119.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec---CCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR---EKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~---skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      +..++|||||||..+-+.+|.++|.+||.            |..+....   ...||||+|.++-+|+-||. -+|..+.
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKyg~------------i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdyd   71 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKYGR------------IREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYD   71 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhhcc------------eEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccC
Confidence            56789999999999999999999999884            33333322   35699999999999999999 9999999


Q ss_pred             cccccccCCcccee------------------------------EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC
Q 002280          537 GSILKIKRPKEFVE------------------------------VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE  586 (943)
Q Consensus       537 Gr~LkV~rp~d~~~------------------------------~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~  586 (943)
                      |..|+|..|...-.                              ..|.|.+||...+++||++.+.+.|.|....+.+| 
T Consensus        72 g~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-  150 (241)
T KOG0105|consen   72 GCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-  150 (241)
T ss_pred             cceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-
Confidence            99999986542210                              08999999999999999999999999998888776 


Q ss_pred             CCCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          587 DHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       587 ~~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                          |++.|+|...++..-|+..|....+.
T Consensus       151 ----g~GvV~~~r~eDMkYAvr~ld~~~~~  176 (241)
T KOG0105|consen  151 ----GVGVVEYLRKEDMKYAVRKLDDQKFR  176 (241)
T ss_pred             ----cceeeeeeehhhHHHHHHhhcccccc
Confidence                69999999999999999999887763

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

Probab=99.50  E-value=2.1e-12  Score=141.02  Aligned_cols=250  Identities=18%  Similarity=0.244  Sum_probs=184.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-ecCCCe-eeEEeCCHHHHHHHHH-ccCCccc-c-
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQ-AFVEFLTAEDASAALC-CDGCSFS-G-  537 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-~~skGy-AFVeF~s~edA~~Al~-LnG~~l~-G-  537 (943)
                      --+++|+|+-+-+|-+-|-.+|+.||.            |..+.| .++.+| |+|+|.+++.|..|-. |+|..|. | 
T Consensus       150 vLr~iie~m~ypVslDVLHqvFS~fG~------------VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngc  217 (492)
T KOG1190|consen  150 VLRTIIENMFYPVSLDVLHQVFSKFGF------------VLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGC  217 (492)
T ss_pred             eEEEEeccceeeeEHHHHHHHHhhcce------------eEEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCce
Confidence            347889999999999999999999994            344433 456666 9999999999999998 9998663 3 


Q ss_pred             ccccccC--------------Ccccee-----------------------------------------------------
Q 002280          538 SILKIKR--------------PKEFVE-----------------------------------------------------  550 (943)
Q Consensus       538 r~LkV~r--------------p~d~~~-----------------------------------------------------  550 (943)
                      +.|+|..              ..||..                                                     
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            3455541              111110                                                     


Q ss_pred             EEEEEecCC-CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp-~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      ..|.|.||. ..+|.+-|..+|+.||.|..|+|+.+   .+-.|.|+|.+...|+.|+..|+|..+.|++|+|.++....
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            057788885 57899999999999999999999886   34689999999999999999999999999999999886554


Q ss_pred             CcCCCCC-----------CCCCCCCCCCc--CCC-CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeE
Q 002280          630 SIMDNSG-----------NPPFHGIPKHA--LPL-LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVK  695 (943)
Q Consensus       630 ~~~~~~~-----------~~~~~~ip~~~--~~~-~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~  695 (943)
                      ......+           +.++...+...  +.. .-.|+..|.|.|+...-..            ||+++.|..-|.++
T Consensus       375 vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svse------------e~lk~~f~~~g~~v  442 (492)
T KOG1190|consen  375 VQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSE------------EDLKNLFQEPGGQV  442 (492)
T ss_pred             ccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccch------------hHHHHhhhcCCceE
Confidence            4333221           22222221111  111 2367889999998764443            78999999888765


Q ss_pred             EEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCC-ceEEEE
Q 002280          696 SVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEK-GERLEE  742 (943)
Q Consensus       696 ~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k-~~~v~~  742 (943)
                      +....-.   ...-++.+.+.++++|..|+..|+...+++- -+.|+-
T Consensus       443 kafkff~---kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF  487 (492)
T KOG1190|consen  443 KAFKFFQ---KDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF  487 (492)
T ss_pred             EeeeecC---CCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence            5554332   1234689999999999999999999988865 444443

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

Probab=99.48  E-value=5.3e-14  Score=145.68  Aligned_cols=76  Identities=16%  Similarity=0.329  Sum_probs=70.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|||-.||....+.+|..+|-.||.|.+.++..|  ++.++.|+||.|.++.+|+.||.+|||+.|+-+.|+|....|
T Consensus       287 NlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP  364 (371)
T KOG0146|consen  287 NLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP  364 (371)
T ss_pred             eEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence            8999999999999999999999999999888877  567899999999999999999999999999999999975544

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

Probab=99.47  E-value=4.6e-13  Score=138.81  Aligned_cols=89  Identities=19%  Similarity=0.350  Sum_probs=71.7

Q ss_pred             cccccccCCcc----ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          537 GSILKIKRPKE----FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       537 Gr~LkV~rp~d----~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      .++|.|.....    -...+||||-|...-.|+|++.+|+.||.|..|.+.+. .+.++|||||.|.+..+|..||..|+
T Consensus         2 nrpiqvkpadsesrg~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLH   81 (371)
T KOG0146|consen    2 NRPIQVKPADSESRGGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALH   81 (371)
T ss_pred             CCCccccccccccCCccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhc
Confidence            35666653221    12239999999999999999999999999999999887 46789999999999999999999999


Q ss_pred             CCc-cCC--eEEEEEEc
Q 002280          612 GLK-VGG--QVLTAVQA  625 (943)
Q Consensus       612 G~~-~~g--r~L~V~~A  625 (943)
                      |.. +.|  -.|.|.+|
T Consensus        82 gSqTmpGASSSLVVK~A   98 (371)
T KOG0146|consen   82 GSQTMPGASSSLVVKFA   98 (371)
T ss_pred             ccccCCCCccceEEEec
Confidence            954 333  46777764

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

Probab=99.47  E-value=4.8e-13  Score=137.44  Aligned_cols=153  Identities=24%  Similarity=0.351  Sum_probs=129.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHH----HHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          461 RPMRRLCVENLPLSASEKALME----FLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~e----lF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .++.||||.||+..+..++|+.    +|++||.+.         .|+-+.+...+|.|||.|.+.+.|..|+. |+|+.|
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~il---------dI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpF   77 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKIL---------DISAFKTPKMRGQAFVVFKETEAASAALRALQGFPF   77 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhCCeE---------EEEecCCCCccCceEEEecChhHHHHHHHHhcCCcc
Confidence            3455999999999999999988    999998532         34555678899999999999999999999 999999


Q ss_pred             ccccccccCCcc-------------------------------------c---------------e--eEEEEEecCCCC
Q 002280          536 SGSILKIKRPKE-------------------------------------F---------------V--EVAIFIGGISRT  561 (943)
Q Consensus       536 ~Gr~LkV~rp~d-------------------------------------~---------------~--~~~LfV~NLp~~  561 (943)
                      .|++++|+.++.                                     +               .  ...||+.|||..
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            999999984321                                     0               0  017999999999


Q ss_pred             CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEEEc
Q 002280          562 LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQA  625 (943)
Q Consensus       562 ~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~~A  625 (943)
                      ++.+.+..+|.+|...+.|+++..   ..+.|||+|.+...|..|...|+|..|. ...+.|.+|
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            999999999999999999988764   5789999999999999999999998886 667777654

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

Probab=99.44  E-value=2.1e-12  Score=144.56  Aligned_cols=152  Identities=19%  Similarity=0.305  Sum_probs=122.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      ..-|-+.+|||++|+++|.+||+.|..    ..     .+..+.+|+..|-|||||.+.+++.+||+.+-..+..+-|.|
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~I----~~-----~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEV   80 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCGI----EN-----LEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEV   80 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCce----eE-----EEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEE
Confidence            456889999999999999999988662    21     556677799999999999999999999999998888888888


Q ss_pred             cCCc----cce-----------eEEEEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec-CCCCCCEEEEeecChhHHHH
Q 002280          543 KRPK----EFV-----------EVAIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPK  605 (943)
Q Consensus       543 ~rp~----d~~-----------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d-~~~skG~aFVeF~~~e~A~k  605 (943)
                      ....    +|.           ...|-+.+||+.++++||.++|+-.-.+.. |.++.+ .+...|-|||+|++.+.|++
T Consensus        81 f~~~~~e~d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~  160 (510)
T KOG4211|consen   81 FTAGGAEADWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEI  160 (510)
T ss_pred             EccCCccccccccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHH
Confidence            7432    121           118899999999999999999998766655 445555 45678999999999999999


Q ss_pred             HHHHhCCCccCCeEEEEEE
Q 002280          606 AIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       606 Al~~LnG~~~~gr~L~V~~  624 (943)
                      ||. -|...|+-+-|.|-.
T Consensus       161 Al~-rhre~iGhRYIEvF~  178 (510)
T KOG4211|consen  161 ALG-RHRENIGHRYIEVFR  178 (510)
T ss_pred             HHH-HHHHhhccceEEeeh
Confidence            997 344566777777654

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.41  E-value=3.9e-11  Score=129.68  Aligned_cols=254  Identities=20%  Similarity=0.142  Sum_probs=187.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH---ccCCccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~---LnG~~l~Gr  538 (943)
                      .+-.|.|.+|...++|.+|.+.++.||            +|.-+.....+..|.|+|.+.+.|..++.   -+.+.+.|+
T Consensus        30 ~spvvhvr~l~~~v~eadl~eal~~fG------------~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq   97 (494)
T KOG1456|consen   30 PSPVVHVRGLHQGVVEADLVEALSNFG------------PIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQ   97 (494)
T ss_pred             CCceEEEeccccccchhHHHHHHhcCC------------ceEEEEeccccceeeeeeccccchhhheehhccCcccccCc
Confidence            345799999999999999999999988            55556666778899999999999999987   344677777


Q ss_pred             ccccc--------CCccce--eE---EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHH
Q 002280          539 ILKIK--------RPKEFV--EV---AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPK  605 (943)
Q Consensus       539 ~LkV~--------rp~d~~--~~---~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~k  605 (943)
                      .--+.        |+.+..  +.   -+-|-|--+.+|-+-|..+|...|+|..|.|++.   +--.|.|+|++.+.|++
T Consensus        98 ~Al~NyStsq~i~R~g~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk---ngVQAmVEFdsv~~Aqr  174 (494)
T KOG1456|consen   98 QALFNYSTSQCIERPGDESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK---NGVQAMVEFDSVEVAQR  174 (494)
T ss_pred             hhhcccchhhhhccCCCCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec---cceeeEEeechhHHHHH
Confidence            65444        443211  11   2334555678999999999999999999988775   33479999999999999


Q ss_pred             HHHHhCCCcc--CCeEEEEEEcccCCCcCCC------------------CCCC---------------------------
Q 002280          606 AIAGLNGLKV--GGQVLTAVQAVLDGSIMDN------------------SGNP---------------------------  638 (943)
Q Consensus       606 Al~~LnG~~~--~gr~L~V~~A~~~~~~~~~------------------~~~~---------------------------  638 (943)
                      |..+|||..|  +-.+|+|.+|.|.......                  .+..                           
T Consensus       175 Ak~alNGADIYsGCCTLKIeyAkP~rlnV~knd~DtwDyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~s  254 (494)
T KOG1456|consen  175 AKAALNGADIYSGCCTLKIEYAKPTRLNVQKNDKDTWDYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYS  254 (494)
T ss_pred             HHhhcccccccccceeEEEEecCcceeeeeecCCccccccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcc
Confidence            9999999887  5679999999874421000                  0000                           


Q ss_pred             -----CCCCCC-----------CCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC
Q 002280          639 -----PFHGIP-----------KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY  702 (943)
Q Consensus       639 -----~~~~ip-----------~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~  702 (943)
                           |....|           ..+.+..+.+..|+.|..|--...-           .+-|..+|..||.|+.|+.++.
T Consensus       255 g~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~g~VmMVyGLdh~k~N-----------~drlFNl~ClYGNV~rvkFmkT  323 (494)
T KOG1456|consen  255 GDRHGPPHPPPSRYRDGYRDGRGYASPGGGAPGCVMMVYGLDHGKMN-----------CDRLFNLFCLYGNVERVKFMKT  323 (494)
T ss_pred             cccCCCCCCCCCCCccccccCCCCCCCCCCCCCcEEEEEeccccccc-----------hhhhhhhhhhcCceeeEEEeec
Confidence                 000000           0011223456788888887332111           2567888999999999999986


Q ss_pred             CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          703 GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       703 ~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      .    .|.|.|++.+..+.+.|+..||+-.+-+.++.+..+-.
T Consensus       324 k----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ  362 (494)
T KOG1456|consen  324 K----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ  362 (494)
T ss_pred             c----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence            4    45678999999999999999999999988888876644

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

Probab=99.38  E-value=4.7e-12  Score=136.20  Aligned_cols=160  Identities=17%  Similarity=0.245  Sum_probs=126.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee---ecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~---~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ..+..|||.|||..+|-+++.++|+.||.+..  .+....|-+....   |.-+|-|.|.|...++++.|+. |++..|.
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            34556999999999999999999999985422  2233334333332   6778999999999999999999 9999999


Q ss_pred             cccccccCCc-----cceeE-------------------------------------EEEEecCCC----CCC-------
Q 002280          537 GSILKIKRPK-----EFVEV-------------------------------------AIFIGGISR----TLS-------  563 (943)
Q Consensus       537 Gr~LkV~rp~-----d~~~~-------------------------------------~LfV~NLp~----~~t-------  563 (943)
                      |+.|+|.+++     +|.+.                                     +|.+.||-.    ..+       
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            9999998643     11110                                     788888843    222       


Q ss_pred             HHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          564 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       564 eedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      .++|.+.|++||+|..|.|.-  ....|.+-|.|.+.+.|..||+.|+|++|+|++|.+..
T Consensus       290 kedl~eec~K~G~v~~vvv~d--~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i  348 (382)
T KOG1548|consen  290 KEDLTEECEKFGQVRKVVVYD--RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASI  348 (382)
T ss_pred             HHHHHHHHHHhCCcceEEEec--cCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEE
Confidence            367888999999999987752  23579999999999999999999999999999998863

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.37  E-value=3.4e-12  Score=126.73  Aligned_cols=78  Identities=19%  Similarity=0.337  Sum_probs=73.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|+.|+..|||..|.|+.|.|.++.+..
T Consensus        36 ~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~  115 (144)
T PLN03134         36 KLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRP  115 (144)
T ss_pred             EEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCC
Confidence            8999999999999999999999999999999887  45679999999999999999999999999999999999986543

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=99.36  E-value=6.5e-12  Score=127.67  Aligned_cols=149  Identities=21%  Similarity=0.344  Sum_probs=111.7

Q ss_pred             ccccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec----CCCeeeEEeCCHHHHHHHHH-c
Q 002280          456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR----EKGQAFVEFLTAEDASAALC-C  530 (943)
Q Consensus       456 ~~~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~----skGyAFVeF~s~edA~~Al~-L  530 (943)
                      ..+....-|||||.+||.++...+|..+|..|-   |+   .+   ..-..+++    .+.+|||.|.+.++|..|+. |
T Consensus        27 ~~~~~~~VRTLFVSGLP~DvKpREiynLFR~f~---GY---Eg---slLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaL   97 (284)
T KOG1457|consen   27 LADEPGAVRTLFVSGLPNDVKPREIYNLFRRFH---GY---EG---SLLKYTSKGDQVCKPVAFATFTSHQFALAAMNAL   97 (284)
T ss_pred             ccccccccceeeeccCCcccCHHHHHHHhccCC---Cc---cc---eeeeeccCCCccccceEEEEecchHHHHHHHHHh
Confidence            344455679999999999999999999997763   11   11   11112222    34789999999999999999 9


Q ss_pred             cCCcc---ccccccccCCcc---------ce--------eE---------------------------------------
Q 002280          531 DGCSF---SGSILKIKRPKE---------FV--------EV---------------------------------------  551 (943)
Q Consensus       531 nG~~l---~Gr~LkV~rp~d---------~~--------~~---------------------------------------  551 (943)
                      ||+.|   .+..|+|.-++.         ..        ..                                       
T Consensus        98 NGvrFDpE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~  177 (284)
T KOG1457|consen   98 NGVRFDPETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDT  177 (284)
T ss_pred             cCeeeccccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccc
Confidence            99887   456666641110         00        00                                       


Q ss_pred             ----------------------------------EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEee
Q 002280          552 ----------------------------------AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEY  597 (943)
Q Consensus       552 ----------------------------------~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF  597 (943)
                                                        +|||.||..+++|++|+.+|+.|-....++|-.  ..+..+||++|
T Consensus       178 t~~~~l~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~--~~g~~vaf~~~  255 (284)
T KOG1457|consen  178 TKSEALSAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA--RGGMPVAFADF  255 (284)
T ss_pred             cchhhhhhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec--CCCcceEeecH
Confidence                                              999999999999999999999997666665532  23456899999


Q ss_pred             cChhHHHHHHHHhCCCcc
Q 002280          598 VDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       598 ~~~e~A~kAl~~LnG~~~  615 (943)
                      .+.+.|..|+..|+|..|
T Consensus       256 ~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  256 EEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             HHHHHHHHHHHHhhccee
Confidence            999999999999998766

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

Probab=99.35  E-value=1.9e-11  Score=125.72  Aligned_cols=167  Identities=16%  Similarity=0.210  Sum_probs=124.9

Q ss_pred             EEEEecCCCCCCHHHHHH----HHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVME----IVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e----~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||.||...+..++|+.    +|++||.|..|...+ +...+|.|||.|.+.+.|..|+.+|+|..|-|+++.++||..
T Consensus        11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k-t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s   89 (221)
T KOG4206|consen   11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK-TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKS   89 (221)
T ss_pred             eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC-CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccC
Confidence            999999999999988877    999999998887654 355799999999999999999999999999999999999865


Q ss_pred             CCCcCCC-C-----------------------CCC-----CCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHH
Q 002280          628 DGSIMDN-S-----------------------GNP-----PFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVE  678 (943)
Q Consensus       628 ~~~~~~~-~-----------------------~~~-----~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~  678 (943)
                      +.-.... .                       .+.     +..++|.........|..+|++.|+....+.         
T Consensus        90 ~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~---------  160 (221)
T KOG4206|consen   90 DSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESES---------  160 (221)
T ss_pred             ccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhH---------
Confidence            4322111 0                       000     0011111111112567889999998653332         


Q ss_pred             HHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCC
Q 002280          679 EVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNE  735 (943)
Q Consensus       679 ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~  735 (943)
                         +-+..+|+.|.....|.+...    ..+.+||+|.+...|..|.++|.|..|.-
T Consensus       161 ---e~l~~lf~qf~g~keir~i~~----~~~iAfve~~~d~~a~~a~~~lq~~~it~  210 (221)
T KOG4206|consen  161 ---EMLSDLFEQFPGFKEIRLIPP----RSGIAFVEFLSDRQASAAQQALQGFKITK  210 (221)
T ss_pred             ---HHHHHHHhhCcccceeEeccC----CCceeEEecchhhhhHHHhhhhccceecc
Confidence               234556788888888887663    45678999999999999999999999884

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=99.33  E-value=1.3e-10  Score=125.67  Aligned_cols=250  Identities=20%  Similarity=0.254  Sum_probs=175.6

Q ss_pred             CCCCCeEEEcCCC--CCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCC-eeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          460 NRPMRRLCVENLP--LSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG-QAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP--~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skG-yAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      ..++..|.+.=|.  +.+|-+-|..+.+.+|            .|..+.+.+-.| .|.|||.+.+.|++|.+ |||..|
T Consensus       117 ~~pN~VLl~TIlNp~YpItvDVly~Icnp~G------------kVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADI  184 (494)
T KOG1456|consen  117 ATPNKVLLFTILNPQYPITVDVLYTICNPQG------------KVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADI  184 (494)
T ss_pred             CCCCeEEEEEeecCccccchhhhhhhcCCCC------------ceEEEEEEeccceeeEEeechhHHHHHHHhhcccccc
Confidence            3445555555444  5799999999998877            445555544344 69999999999999999 999765


Q ss_pred             -cc-ccccccCCc--------------cceeE------------------------------------------------
Q 002280          536 -SG-SILKIKRPK--------------EFVEV------------------------------------------------  551 (943)
Q Consensus       536 -~G-r~LkV~rp~--------------d~~~~------------------------------------------------  551 (943)
                       .| .+|+|..++              ||.-+                                                
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             34 456665211              01000                                                


Q ss_pred             ------------------------EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHH
Q 002280          552 ------------------------AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA  606 (943)
Q Consensus       552 ------------------------~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kA  606 (943)
                                              .++|.+|.. .++.+.|..+|..||.|..|++++.   ..|.|+|++.+....++|
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                                    788999986 6778899999999999999999875   578999999999999999


Q ss_pred             HHHhCCCccCCeEEEEEEcccCCCcCC----------------CCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCC
Q 002280          607 IAGLNGLKVGGQVLTAVQAVLDGSIMD----------------NSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFS  670 (943)
Q Consensus       607 l~~LnG~~~~gr~L~V~~A~~~~~~~~----------------~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~  670 (943)
                      +..||+..+-|.+|.|..+........                ...+..|..-.+++....+.|++||...|..-  .  
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            999999999999999987643322111                01122232223344555788999999999743  3  


Q ss_pred             CCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCC
Q 002280          671 SLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEK  736 (943)
Q Consensus       671 ~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k  736 (943)
                       |+++.+.+|+.+...      .-.+|+|..-.. .-...|.++|++.++|..|+..||-..+.+.
T Consensus       418 -vtEe~l~~i~nek~v------~~~svkvFp~ks-erSssGllEfe~~s~Aveal~~~NH~pi~~p  475 (494)
T KOG1456|consen  418 -VTEEQLIGICNEKDV------PPTSVKVFPLKS-ERSSSGLLEFENKSDAVEALMKLNHYPIEGP  475 (494)
T ss_pred             -cCHHHHHHHhhhcCC------CcceEEeecccc-cccccceeeeehHHHHHHHHHHhccccccCC
Confidence             355555555543321      135666654322 1223468999999999999999998888654

>PF00076 RRM_1: RNA recognition motif

Probab=99.24  E-value=2.7e-11  Score=103.82  Aligned_cols=69  Identities=20%  Similarity=0.467  Sum_probs=65.1

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      |||+|||..+++++|+++|++||.|..+.+..+ .+..+|+|||+|.+.++|.+|+..|+|..++|+.|+
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 566799999999999999999999999999999885

(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 ....

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.22  E-value=1.8e-11  Score=121.52  Aligned_cols=79  Identities=19%  Similarity=0.299  Sum_probs=67.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|.+||.+..   +   ..+.+..++.++|||||+|.+.++|+.||. ||+..|.|+.|
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~---v---~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l  106 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVD---A---KVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHI  106 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEE---E---EEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            4568999999999999999999999885332   2   244566678899999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.+..
T Consensus       107 ~V~~a~  112 (144)
T PLN03134        107 RVNPAN  112 (144)
T ss_pred             EEEeCC
Confidence            998654

>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]

Probab=99.18  E-value=7.2e-10  Score=110.02  Aligned_cols=170  Identities=17%  Similarity=0.229  Sum_probs=121.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||+|||..+-+.+|.++|.+||.|..|.|... -...+||||+|+++.+|+.||..-+|..+.|..|.|.++--....
T Consensus         8 ~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r-~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s   86 (241)
T KOG0105|consen    8 RIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR-PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSS   86 (241)
T ss_pred             eEEecCCCcchhhccHHHHHhhhcceEEEEeccC-CCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcc
Confidence            8999999999999999999999999999987543 223679999999999999999999999999999999987543321


Q ss_pred             CCCCCCC---CCCCCC-C-CcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCC
Q 002280          632 MDNSGNP---PFHGIP-K-HALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN  706 (943)
Q Consensus       632 ~~~~~~~---~~~~ip-~-~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~  706 (943)
                      ...-++-   .-.+-+ . .-.+.+.....-+++..|......            .||+.+.-+-|.|-...+.++.   
T Consensus        87 ~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSW------------QDLKDHmReaGdvCfadv~rDg---  151 (241)
T KOG0105|consen   87 SDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSW------------QDLKDHMREAGDVCFADVQRDG---  151 (241)
T ss_pred             cccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCch------------HHHHHHHHhhCCeeeeeeeccc---
Confidence            1100000   000000 0 000111122234556777654443            4666666777999888888853   


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCceEE
Q 002280          707 ISTIQACEGNENTASAGVGQNLTNDETNEKGERL  740 (943)
Q Consensus       707 ~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v  740 (943)
                         ++.|+|...++.+-|+..|....|-....+.
T Consensus       152 ---~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~  182 (241)
T KOG0105|consen  152 ---VGVVEYLRKEDMKYAVRKLDDQKFRSEGETA  182 (241)
T ss_pred             ---ceeeeeeehhhHHHHHHhhccccccCcCcEe
Confidence               5678999999999999999988887655554

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=99.18  E-value=7.2e-11  Score=129.95  Aligned_cols=164  Identities=15%  Similarity=0.146  Sum_probs=129.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||++|++.++++.|++.|.+||.|..+.++++  ++.++||+||+|.+++.+..+|.. .-..|.|+.|.+..|.+..
T Consensus         8 KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~av~r~   86 (311)
T KOG4205|consen    8 KLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRAVSRE   86 (311)
T ss_pred             ceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceeccCcc
Confidence            8999999999999999999999999999999998  456799999999999999988863 3467899999998887644


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~  708 (943)
                      ......               ....++.++|..+....+.            +++++.|++||.|..+.|+.+ .....+
T Consensus        87 ~~~~~~---------------~~~~tkkiFvGG~~~~~~e------------~~~r~yfe~~g~v~~~~~~~d~~~~~~r  139 (311)
T KOG4205|consen   87 DQTKVG---------------RHLRTKKIFVGGLPPDTTE------------EDFKDYFEQFGKVADVVIMYDKTTSRPR  139 (311)
T ss_pred             cccccc---------------cccceeEEEecCcCCCCch------------HHHhhhhhccceeEeeEEeecccccccc
Confidence            321111               0125778888877443332            689999999999999998876 466688


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      ||+||.|.+.+...+++ ...-..|+++++.+.-++
T Consensus       140 gFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~  174 (311)
T KOG4205|consen  140 GFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAI  174 (311)
T ss_pred             cceeeEeccccccceec-ccceeeecCceeeEeecc
Confidence            99999999988776664 445677778877765554

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=99.18  E-value=2.4e-11  Score=126.27  Aligned_cols=143  Identities=21%  Similarity=0.335  Sum_probs=119.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      .+||||+||+.+.+.+|..||..||.+..+       .+       -.||+||+|.+..+|.-|+. |||..|.|-.+.|
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            479999999999999999999998863321       11       16789999999999999999 9999998887666


Q ss_pred             cCCcc---------------c----ee-----EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeec
Q 002280          543 KRPKE---------------F----VE-----VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYV  598 (943)
Q Consensus       543 ~rp~d---------------~----~~-----~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~  598 (943)
                      ..+..               +    ..     ..|+|.+++..+.+.+|.+.|..+|.+....+      ..+++||+|.
T Consensus        68 e~~r~~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~------~~~~~~v~Fs  141 (216)
T KOG0106|consen   68 EHARGKRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA------RRNFAFVEFS  141 (216)
T ss_pred             ecccccccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh------hccccceeeh
Confidence            64441               1    01     18899999999999999999999999844433      4689999999


Q ss_pred             ChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          599 DQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       599 ~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      ..++|..|+..|+|..+.++.|.+..+.
T Consensus       142 ~~~da~ra~~~l~~~~~~~~~l~~~~~~  169 (216)
T KOG0106|consen  142 EQEDAKRALEKLDGKKLNGRRISVEKNS  169 (216)
T ss_pred             hhhhhhhcchhccchhhcCceeeecccC
Confidence            9999999999999999999999995443

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=99.15  E-value=7e-11  Score=122.80  Aligned_cols=160  Identities=15%  Similarity=0.165  Sum_probs=119.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      .+||++||+.+.+.+|..+|..||.|..+.+.      .||+||+|.+..+|..|+..|||..|.|-.+.|.++....-.
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~   76 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMK------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRG   76 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceee------cccceeccCchhhhhcccchhcCceecceeeeeecccccccc
Confidence            68999999999999999999999999988763      479999999999999999999999999988888887643221


Q ss_pred             CCCCCCCCCCC-CCC-C-cCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcc
Q 002280          632 MDNSGNPPFHG-IPK-H-ALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS  708 (943)
Q Consensus       632 ~~~~~~~~~~~-ip~-~-~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~  708 (943)
                      .+..    ..+ -+. . ..........++++.|+-.            ..-+.||...|++||.+..+.+       ..
T Consensus        77 ~g~~----~~g~r~~~~~~~~~p~~s~~r~~~~~~~~------------r~~~qdl~d~~~~~g~~~~~~~-------~~  133 (216)
T KOG0106|consen   77 RGRP----RGGDRRSDSRRYRPPSRTHFRLIVRNLSL------------RVSWQDLKDHFRPAGEVTYVDA-------RR  133 (216)
T ss_pred             cCCC----CCCCccchhhccCCcccccceeeeccchh------------hhhHHHHhhhhcccCCCchhhh-------hc
Confidence            1000    000 000 0 0000112234455555432            1123578899999999965544       35


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEE
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERL  740 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v  740 (943)
                      +++||+|.+.++|..|+..|+|.+++++.+++
T Consensus       134 ~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen  134 NFAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             cccceeehhhhhhhhcchhccchhhcCceeee
Confidence            67899999999999999999999999999888

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=99.12  E-value=2.7e-10  Score=132.98  Aligned_cols=98  Identities=18%  Similarity=0.254  Sum_probs=77.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ++|||||+|+..++|.+|..+|+.||            .|..+.....+|+|||.+....+|.+||. |+...+.++.|+
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefG------------eiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Ik  488 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFG------------EIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIK  488 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcc------------cceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeE
Confidence            47999999999999999999999999            45566667789999999999999999999 999999999999


Q ss_pred             ccCCcc---------ceeEEEEEecCCCCCCHHHHHHHHh
Q 002280          542 IKRPKE---------FVEVAIFIGGISRTLSSKMVMEIVC  572 (943)
Q Consensus       542 V~rp~d---------~~~~~LfV~NLp~~~teedL~e~Fs  572 (943)
                      |.|.-.         |....+=|.-||+..-..+|..+|.
T Consensus       489 i~Wa~g~G~kse~k~~wD~~lGVt~IP~~kLt~dl~~~~e  528 (894)
T KOG0132|consen  489 IAWAVGKGPKSEYKDYWDVELGVTYIPWEKLTDDLEAWCE  528 (894)
T ss_pred             EeeeccCCcchhhhhhhhcccCeeEeehHhcCHHHHHhhh
Confidence            887432         2222344555666433344666554

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

Probab=99.11  E-value=1.6e-10  Score=123.69  Aligned_cols=98  Identities=15%  Similarity=0.211  Sum_probs=86.1

Q ss_pred             cCCccccccccccCCcc----ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHH
Q 002280          531 DGCSFSGSILKIKRPKE----FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKA  606 (943)
Q Consensus       531 nG~~l~Gr~LkV~rp~d----~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kA  606 (943)
                      +|-...|.++.+.++..    ..+.+|+|+|||+..-+-||+.+|.+||+|.+|.|+.+...+|||+||+|++.++|++|
T Consensus        73 ~~~~t~g~~~~~~~st~s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRA  152 (376)
T KOG0125|consen   73 NGAPTDGQPIQTQPSTNSSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRA  152 (376)
T ss_pred             CCCCCCCCccccCCCCcCCCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHH
Confidence            44556677777665432    34459999999999999999999999999999999998888999999999999999999


Q ss_pred             HHHhCCCccCCeEEEEEEcccC
Q 002280          607 IAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       607 l~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      -+.|||..+.||+|.|..|.+.
T Consensus       153 Ra~LHgt~VEGRkIEVn~ATar  174 (376)
T KOG0125|consen  153 RAELHGTVVEGRKIEVNNATAR  174 (376)
T ss_pred             HHHhhcceeeceEEEEeccchh
Confidence            9999999999999999988664

>PF00076 RRM_1: RNA recognition motif

Probab=99.09  E-value=9.4e-11  Score=100.41  Aligned_cols=69  Identities=33%  Similarity=0.497  Sum_probs=57.4

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      |||+|||+.+|+++|+++|++||.+..+       .+..-..+..++||||+|.+.++|..|++ |+|..+.|++|+
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            7999999999999999999999864221       11111346678999999999999999999 999999999875

(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=99.06  E-value=2.3e-09  Score=114.37  Aligned_cols=164  Identities=17%  Similarity=0.222  Sum_probs=110.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc-
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL-  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~-  627 (943)
                      .+|||+|||..+++++|.++|..||.|..+.+..+  ++..+|+|||+|.+.++|..|+..|+|..|.|+.|.|.++.+ 
T Consensus       116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~  195 (306)
T COG0724         116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPA  195 (306)
T ss_pred             ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccc
Confidence            49999999999999999999999999999999887  477899999999999999999999999999999999998653 


Q ss_pred             CCCcCCCCC--CCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCC
Q 002280          628 DGSIMDNSG--NPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS  705 (943)
Q Consensus       628 ~~~~~~~~~--~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g  705 (943)
                      .........  ...+..-..............+.+.|+......            .++...|..+|.+..+.+.....+
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~  263 (306)
T COG0724         196 SQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAE------------EELADLFKSRGDIVRASLPPSKDG  263 (306)
T ss_pred             cccccccccccchhhhccccccccccccccceeeccccccccch------------hHHHHhccccccceeeeccCCCCC
Confidence            111110000  000000000111112334556666666544333            567888999999977777665433


Q ss_pred             C-cceeEEEEeCCHHHHHHHHH
Q 002280          706 N-ISTIQACEGNENTASAGVGQ  726 (943)
Q Consensus       706 ~-~~G~~FVeF~~~e~A~~Ai~  726 (943)
                      . ...+.++.+.....+..+..
T Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~  285 (306)
T COG0724         264 KIPKSRSFVGNEASKDALESNS  285 (306)
T ss_pred             cccccccccchhHHHhhhhhhc
Confidence            3 32333444444444444433

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.03  E-value=8.4e-10  Score=117.68  Aligned_cols=74  Identities=15%  Similarity=0.235  Sum_probs=68.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||.|..|.|+.+.. .+|||||+|.+.++|..||. |||..|.|+.|.|.++..
T Consensus         6 tVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~-~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          6 TVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE-RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED   79 (260)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC-CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence            899999999999999999999999999999988753 57999999999999999995 999999999999998743

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=99.03  E-value=4.2e-11  Score=118.61  Aligned_cols=74  Identities=24%  Similarity=0.432  Sum_probs=71.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      -|||||||+.+||.||..+|++||.|..|.|++|  +|.++||||+.|++..++..|+..|||..|.|+.|+|.+.
T Consensus        37 ~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   37 YIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             EEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            8999999999999999999999999999999999  5678999999999999999999999999999999999865

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.02  E-value=7.4e-10  Score=95.61  Aligned_cols=69  Identities=20%  Similarity=0.433  Sum_probs=62.0

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      |||+|||+.+++++|.++|+.||.|..+.+..+. +..+|+|||+|.+.++|.+|+..++|..|.|+.|.
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            7999999999999999999999999999998874 45589999999999999999999999999999874

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 ....

>PLN03213 repressor of silencing 3; Provisional

Probab=99.02  E-value=7.8e-10  Score=123.07  Aligned_cols=75  Identities=20%  Similarity=0.342  Sum_probs=69.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecCh--hHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ--LVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~--e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+||||||++.+++++|..+|+.||.|..|.|++.++  +|||||+|...  .++.+||..|||..+.|+.|+|..|.|
T Consensus        11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            3899999999999999999999999999999996655  99999999987  679999999999999999999998754

>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]

Probab=99.01  E-value=7.8e-10  Score=109.37  Aligned_cols=72  Identities=18%  Similarity=0.382  Sum_probs=68.0

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      .+|||+||+..+++.+|..+|..||+|..|.|..+   -.|||||+|+++.+|..|+..|+|..|.|..|.|...
T Consensus        11 ~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn---PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S   82 (195)
T KOG0107|consen   11 TKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN---PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS   82 (195)
T ss_pred             ceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec---CCCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence            38999999999999999999999999999999775   5799999999999999999999999999999999865

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=99.01  E-value=1.7e-09  Score=117.56  Aligned_cols=263  Identities=14%  Similarity=0.172  Sum_probs=173.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ..+..|-..+||+..+..+|..||.-      ++...+...+-...-++-.|.|.|.|.+++.-+.|++-+...+.++.|
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            44556778999999999999999943      444443322222233566788999999999999999977778888888


Q ss_pred             cccCCcc--c------------------eeEEEEEecCCCCCCHHHHHHHHhhcC----CeeEEEEEec-CCCCCCEEEE
Q 002280          541 KIKRPKE--F------------------VEVAIFIGGISRTLSSKMVMEIVCAFG----PLKAYHFEVN-EDHEEPCAFI  595 (943)
Q Consensus       541 kV~rp~d--~------------------~~~~LfV~NLp~~~teedL~e~Fs~fG----~I~~v~l~~d-~~~skG~aFV  595 (943)
                      .|-++..  +                  +...|-+.+||++.++.++.++|..-.    ....|-++.. .+.-+|-|||
T Consensus       132 evYka~ge~f~~iagg~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFv  211 (508)
T KOG1365|consen  132 EVYKATGEEFLKIAGGTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFV  211 (508)
T ss_pred             eeeccCchhheEecCCccccCCCCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEE
Confidence            8775441  1                  011677899999999999999997432    2333434433 5667899999


Q ss_pred             eecChhHHHHHHHHhCCCccCCeEEEEEEccc--------CCCcCCC---CCCCCCCCCCCCcCCCCCCCceEEEeccCC
Q 002280          596 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL--------DGSIMDN---SGNPPFHGIPKHALPLLKKPTEVLKLKNVF  664 (943)
Q Consensus       596 eF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~--------~~~~~~~---~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv  664 (943)
                      .|...++|+.||.. |...|+-+-|.+-+++.        .......   .......++|..-.+ ...+..||.|..|.
T Consensus       212 lfa~ee~aq~aL~k-hrq~iGqRYIElFRSTaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p-~~~~kdcvRLRGLP  289 (508)
T KOG1365|consen  212 LFACEEDAQFALRK-HRQNIGQRYIELFRSTAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVP-PTRSKDCVRLRGLP  289 (508)
T ss_pred             EecCHHHHHHHHHH-HHHHHhHHHHHHHHHhHHHHHHHHHhhccccccCCCCCCCCCCCccccCC-CCCCCCeeEecCCC
Confidence            99999999999963 33445545444432211        1110000   001111122221111 12346788888886


Q ss_pred             CcCCCCCCChHHHHHHHHHHHHHhcCCCC-e--EEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEE
Q 002280          665 NPEGFSSLSELEVEEVLEDVRLECARFGS-V--KSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLE  741 (943)
Q Consensus       665 ~~~~l~~i~~~~~~ei~eDlre~fskFG~-V--~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~  741 (943)
                      ....            .+||-..|.-|-. |  .-|.+.-+..|.-.|-|||+|.+.+.|..|++..+...-..+.+.|-
T Consensus       290 y~At------------vEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf  357 (508)
T KOG1365|consen  290 YEAT------------VEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF  357 (508)
T ss_pred             hhhh------------HHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence            5444            3566555555543 2  23778888889989999999999999999999888777667777775


Q ss_pred             Ee
Q 002280          742 EV  743 (943)
Q Consensus       742 ~~  743 (943)
                      +.
T Consensus       358 p~  359 (508)
T KOG1365|consen  358 PC  359 (508)
T ss_pred             ec
Confidence            54

>smart00362 RRM_2 RNA recognition motif

Probab=99.00  E-value=1.8e-09  Score=91.45  Aligned_cols=71  Identities=27%  Similarity=0.557  Sum_probs=66.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      +|+|+|||..+++++|.++|+.||.|..+.+..+.+.++|+|||+|.+.+.|..|+..|+|..+.|+.|.|
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            58999999999999999999999999999888776667899999999999999999999999999999876

>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]

Probab=99.00  E-value=7.6e-10  Score=104.06  Aligned_cols=74  Identities=12%  Similarity=0.283  Sum_probs=68.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+||++.++||+|.++|++.|.|+.|.+-.|  +.+..|||||+|.+.++|..|+.-++|..+..++|.|.+.
T Consensus        38 tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D  113 (153)
T KOG0121|consen   38 TVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD  113 (153)
T ss_pred             eEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence            9999999999999999999999999999877555  4567899999999999999999999999999999999764

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=1.2e-09  Score=113.23  Aligned_cols=77  Identities=18%  Similarity=0.291  Sum_probs=73.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|-|.||+.++++++|+++|.+||.|..|.|.+|  ++.++|||||.|.+.++|.+||..|||+-+..-.|.|.|+.|.
T Consensus       191 tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~  269 (270)
T KOG0122|consen  191 TVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS  269 (270)
T ss_pred             eeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence            8999999999999999999999999999999998  5678999999999999999999999999999999999999774

>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]

Probab=98.99  E-value=5.2e-10  Score=105.15  Aligned_cols=85  Identities=20%  Similarity=0.272  Sum_probs=66.6

Q ss_pred             ccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       458 ~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      .+.+.+.|||||||.+.+||++|.++|+.+|.+.-+   -   --++..+...-|||||+|.+.++|..||. ++|..|.
T Consensus        31 ~a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irri---i---MGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLd  104 (153)
T KOG0121|consen   31 EALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRI---I---MGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLD  104 (153)
T ss_pred             HHHhhcceEEEeeeeeeecHHHHHHHHHhccchhee---E---eccccCCcCccceEEEEEecchhHHHHHHHhccCccc
Confidence            345778999999999999999999999998843221   0   00222334456899999999999999999 9999999


Q ss_pred             cccccccCCccc
Q 002280          537 GSILKIKRPKEF  548 (943)
Q Consensus       537 Gr~LkV~rp~d~  548 (943)
                      .++|.|-+-..+
T Consensus       105 dr~ir~D~D~GF  116 (153)
T KOG0121|consen  105 DRPIRIDWDAGF  116 (153)
T ss_pred             ccceeeeccccc
Confidence            999998754443

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

Probab=98.98  E-value=1.5e-09  Score=115.81  Aligned_cols=115  Identities=21%  Similarity=0.338  Sum_probs=96.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||+.+|+++|.++|..||.+..+      ..+.+..++.++|||||+|.+.++|..|+. ++|..|.|+.|.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~------~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~  188 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRV------RLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLR  188 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEE------EeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeE
Confidence            6899999999999999999999999975332      133444678999999999999999999999 999999999999


Q ss_pred             ccCCc----c---ce---------------------eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEE
Q 002280          542 IKRPK----E---FV---------------------EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE  583 (943)
Q Consensus       542 V~rp~----d---~~---------------------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~  583 (943)
                      |....    .   ..                     ...+++.+++..++..++..+|..+|.+....+.
T Consensus       189 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (306)
T COG0724         189 VQKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLP  258 (306)
T ss_pred             eeccccccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhccccccceeeecc
Confidence            88621    0   11                     0089999999999999999999999999655543

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

Probab=98.97  E-value=1.2e-08  Score=112.43  Aligned_cols=176  Identities=17%  Similarity=0.210  Sum_probs=125.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHh-hcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVC-AFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs-~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+||.|||+++.|++|+++|. +.|.|..|.|+.| .+..+|||.|+|.+++.+++|++.||.+.+.|++|.|.---...
T Consensus        46 ~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q  125 (608)
T KOG4212|consen   46 SVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQ  125 (608)
T ss_pred             eEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchh
Confidence            699999999999999999996 5799999999988 57889999999999999999999999999999999996321100


Q ss_pred             Cc----------------CCCC-CC-------------------------------CC------------CCCCCCCcCC
Q 002280          630 SI----------------MDNS-GN-------------------------------PP------------FHGIPKHALP  649 (943)
Q Consensus       630 ~~----------------~~~~-~~-------------------------------~~------------~~~ip~~~~~  649 (943)
                      ..                ...+ ++                               ..            +.++......
T Consensus       126 ~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr  205 (608)
T KOG4212|consen  126 RDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLR  205 (608)
T ss_pred             hhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhh
Confidence            00                0000 00                               00            0000000000


Q ss_pred             ---CCCCC-ceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHH
Q 002280          650 ---LLKKP-TEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVG  725 (943)
Q Consensus       650 ---~~~~p-s~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai  725 (943)
                         ....| ...++|.||-....            -+.|++.|.--|.|+.|.+--+..|...||+.|+|..+-+|-+||
T Consensus       206 ~~h~f~pPl~~k~fvanl~~~vg------------~~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaI  273 (608)
T KOG4212|consen  206 SLHIFSPPLHNKVFVANLDYKVG------------NKKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAI  273 (608)
T ss_pred             hccCCCCCccceeeeeccccccc------------hHHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHH
Confidence               00111 11233455422111            256788888899999999888888899999999999999999999


Q ss_pred             HHhCCCccCCCceE
Q 002280          726 QNLTNDETNEKGER  739 (943)
Q Consensus       726 ~~LnGr~~~~k~~~  739 (943)
                      ..|++--..++..+
T Consensus       274 sml~~~g~~~~~~~  287 (608)
T KOG4212|consen  274 SMLDRQGLFDRRMT  287 (608)
T ss_pred             HhhccCCCccccce
Confidence            99997655555544

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.95  E-value=1.5e-09  Score=115.86  Aligned_cols=75  Identities=21%  Similarity=0.290  Sum_probs=64.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee---ecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~---~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .++|||+|||+.+|+++|+++|+.||.+            .++.+   +..+|||||+|.++++|..||.|||..|.|+.
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I------------~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~   71 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDI------------EYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQS   71 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCce
Confidence            4799999999999999999999999853            33322   22579999999999999999999999999999


Q ss_pred             ccccCCccce
Q 002280          540 LKIKRPKEFV  549 (943)
Q Consensus       540 LkV~rp~d~~  549 (943)
                      |.|.+..+|.
T Consensus        72 V~Vt~a~~~~   81 (260)
T PLN03120         72 VTITPAEDYQ   81 (260)
T ss_pred             EEEEeccCCC
Confidence            9999876653

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.94  E-value=2.9e-09  Score=96.68  Aligned_cols=75  Identities=17%  Similarity=0.319  Sum_probs=68.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      -|||.|||+.+|.+++.++|.+||.|..|+|-.. ...+|.|||.|++..+|.+|+..|+|..+.++.|.|.+..+
T Consensus        20 iLyirNLp~~ITseemydlFGkyg~IrQIRiG~~-k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~   94 (124)
T KOG0114|consen   20 ILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT-KETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP   94 (124)
T ss_pred             eEEEecCCccccHHHHHHHhhcccceEEEEecCc-cCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence            8999999999999999999999999999998443 33589999999999999999999999999999999987654

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=98.93  E-value=1.4e-08  Score=103.69  Aligned_cols=168  Identities=13%  Similarity=0.232  Sum_probs=115.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC---CCCCCEEEEeecChhHHHHHHHHhCCCccC---CeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVG---GQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~---~~skG~aFVeF~~~e~A~kAl~~LnG~~~~---gr~L~V~~A  625 (943)
                      +|||.+||.++...+|+.+|..|-..+...|....   ...+.+|||.|.+..+|..|+++|||+.|+   +.+|.+..|
T Consensus        36 TLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElA  115 (284)
T KOG1457|consen   36 TLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELA  115 (284)
T ss_pred             eeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeeh
Confidence            99999999999999999999998666666553331   123579999999999999999999999984   778888877


Q ss_pred             ccCCCcCCCC-----C---------C-----------------CC--CC------CC------------------CCCcC
Q 002280          626 VLDGSIMDNS-----G---------N-----------------PP--FH------GI------------------PKHAL  648 (943)
Q Consensus       626 ~~~~~~~~~~-----~---------~-----------------~~--~~------~i------------------p~~~~  648 (943)
                      ..+.......     +         .                 .+  ++      .+                  |....
T Consensus       116 KSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a~a  195 (284)
T KOG1457|consen  116 KSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSANA  195 (284)
T ss_pred             hcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCCcccc
Confidence            5433211000     0         0                 00  00      00                  00000


Q ss_pred             CC--------CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHH
Q 002280          649 PL--------LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTA  720 (943)
Q Consensus       649 ~~--------~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~  720 (943)
                      .+        ......+|+|-||-...+            ++.|+.+|+.|-...-++|--. +|.  ..+||+|++++.
T Consensus       196 ~l~ks~q~~~~~~acstlfianl~~~~~------------ed~l~~~~~~~~gf~~l~~~~~-~g~--~vaf~~~~~~~~  260 (284)
T KOG1457|consen  196 HLEKSSQGGSGARACSTLFIANLGPNCT------------EDELKQLLSRYPGFHILKIRAR-GGM--PVAFADFEEIEQ  260 (284)
T ss_pred             hhhhhhcccccchhhhhHhhhccCCCCC------------HHHHHHHHHhCCCceEEEEecC-CCc--ceEeecHHHHHH
Confidence            00        012234678888754333            2678999999987777777542 222  368999999999


Q ss_pred             HHHHHHHhCCCccC
Q 002280          721 SAGVGQNLTNDETN  734 (943)
Q Consensus       721 A~~Ai~~LnGr~~~  734 (943)
                      |..||..|.|..+.
T Consensus       261 at~am~~lqg~~~s  274 (284)
T KOG1457|consen  261 ATDAMNHLQGNLLS  274 (284)
T ss_pred             HHHHHHHhhcceec
Confidence            99999999998875

>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]

Probab=98.89  E-value=2.2e-09  Score=108.43  Aligned_cols=76  Identities=13%  Similarity=0.242  Sum_probs=72.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|.|-||.+-++.++|+.+|++||.|-+|.|+.|  +..++|||||.|.+..+|+.|+.+|+|..|.|+.|.|+.|.-
T Consensus        15 SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary   92 (256)
T KOG4207|consen   15 SLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY   92 (256)
T ss_pred             eEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence            8999999999999999999999999999999998  567899999999999999999999999999999999987743

>smart00361 RRM_1 RNA recognition motif

Probab=98.88  E-value=5.4e-09  Score=90.87  Aligned_cols=62  Identities=11%  Similarity=0.028  Sum_probs=52.7

Q ss_pred             HHHHHHHHHhcCCCCeEEEE-EecC-CC--CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEE
Q 002280          679 EVLEDVRLECARFGSVKSVN-VVKY-GD--SNISTIQACEGNENTASAGVGQNLTNDETNEKGERL  740 (943)
Q Consensus       679 ei~eDlre~fskFG~V~~V~-I~r~-~~--g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v  740 (943)
                      +|.+.+.++|++||+|.+|. |+.+ ..  +..+|||||+|.+.++|.+|+..|||+.|.++.+++
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            45567788888999999995 4443 33  778999999999999999999999999999998765

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.87  E-value=7.4e-09  Score=108.84  Aligned_cols=73  Identities=14%  Similarity=0.151  Sum_probs=67.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+||++.+|+++|+++|+.||.|..|.|+++. ...++|||+|.++++|..|+ .|+|..|.++.|.|..+.
T Consensus         7 TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~-et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          7 TAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG-EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG   79 (243)
T ss_pred             EEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC-CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence            89999999999999999999999999999999883 34589999999999999999 599999999999998653

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.86  E-value=3.1e-09  Score=91.74  Aligned_cols=69  Identities=33%  Similarity=0.448  Sum_probs=52.5

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      |||+|||+.+|+++|+++|+.||.+..+   .   .+.+.. +..+++|||+|.+.++|..|+. ++|..|.|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v---~---~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKV---R---LIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEE---E---EEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceE---E---EEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            7999999999999999999888742211   0   111112 4568999999999999999999 777999998874

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 ....

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.86  E-value=5.7e-09  Score=110.82  Aligned_cols=74  Identities=19%  Similarity=0.334  Sum_probs=71.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      ||||+-|++.++|..|+..|+.||+|+.|.|+.+  ++.++|||||+|.+..+...|....+|.+|.|+.|.|.+-
T Consensus       103 TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE  178 (335)
T KOG0113|consen  103 TLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE  178 (335)
T ss_pred             eeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence            9999999999999999999999999999999998  6788999999999999999999999999999999999754

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

Probab=98.85  E-value=4.2e-08  Score=110.58  Aligned_cols=168  Identities=10%  Similarity=0.046  Sum_probs=127.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      -|.+.+||+.+|+++|+++|+.++ |..+.+.+.++...|-|||+|.+.+++.+|++ .+-..++.+-|.|-.+.+....
T Consensus        12 ~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e~d   89 (510)
T KOG4211|consen   12 EVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAEAD   89 (510)
T ss_pred             EEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCcccc
Confidence            677899999999999999999986 66788888778889999999999999999997 7778888899999866443321


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEE-EEEecCCCCCccee
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKS-VNVVKYGDSNISTI  710 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~-V~I~r~~~g~~~G~  710 (943)
                      ....      .    ..+....+..||.|..|......            +||.+.|+..=-|.. |.++.+..+...|-
T Consensus        90 ~~~~------~----~g~~s~~~d~vVRLRGLPfscte------------~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGE  147 (510)
T KOG4211|consen   90 WVMR------P----GGPNSSANDGVVRLRGLPFSCTE------------EDIVEFFAGLEIVPDGILLPMDQRGRPTGE  147 (510)
T ss_pred             cccc------C----CCCCCCCCCceEEecCCCccCcH------------HHHHHHhcCCcccccceeeeccCCCCcccc
Confidence            1100      0    01112245678999998664443            688888887766655 55777788888899


Q ss_pred             EEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          711 QACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       711 ~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||+|++.+.|++|++-- -..|+-+.|.|-.+.
T Consensus       148 AfVqF~sqe~ae~Al~rh-re~iGhRYIEvF~Ss  180 (510)
T KOG4211|consen  148 AFVQFESQESAEIALGRH-RENIGHRYIEVFRSS  180 (510)
T ss_pred             eEEEecCHHHHHHHHHHH-HHhhccceEEeehhH
Confidence            999999999999997654 356777777765543

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.84  E-value=6.8e-09  Score=109.11  Aligned_cols=79  Identities=20%  Similarity=0.153  Sum_probs=65.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ...+|||+||++.+|+++|++||+.||.+..+..      +.   -+..++||||+|.++++|..||.|||..|.|++|.
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I------~~---D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~   74 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEI------IR---SGEYACTAYVTFKDAYALETAVLLSGATIVDQRVC   74 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEE------ec---CCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEE
Confidence            3479999999999999999999999996433211      11   14556899999999999999999999999999999


Q ss_pred             ccCCccce
Q 002280          542 IKRPKEFV  549 (943)
Q Consensus       542 V~rp~d~~  549 (943)
                      |.+..+|.
T Consensus        75 It~~~~y~   82 (243)
T PLN03121         75 ITRWGQYE   82 (243)
T ss_pred             EEeCcccc
Confidence            99877654

>smart00360 RRM RNA recognition motif

Probab=98.83  E-value=1.5e-08  Score=85.37  Aligned_cols=68  Identities=21%  Similarity=0.440  Sum_probs=62.7

Q ss_pred             EecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          555 IGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       555 V~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      |+|||..+++++|+++|+.||.|..+.+..+  .+.++|+|||+|.+.++|..|+..|+|..+.|+.|.|
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            5799999999999999999999999998876  3566899999999999999999999999999999876

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.82  E-value=1.9e-10  Score=114.06  Aligned_cols=87  Identities=13%  Similarity=0.204  Sum_probs=77.1

Q ss_pred             ccccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       456 ~~~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      +.+....+.-|||||||+.+||.+|.-+|++||.++.+      ++|.+..||.|+||||+.|.+.-++..|+. |||+.
T Consensus        28 WH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdi------nLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGik  101 (219)
T KOG0126|consen   28 WHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDI------NLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIK  101 (219)
T ss_pred             hhhhcccceEEEECCCcccccCCcEEEEeeccCceEEE------EEEecCCCCcccceEEEEecCccceEEEEeccCCce
Confidence            44556677889999999999999999999999975543      477889999999999999999999999999 99999


Q ss_pred             cccccccccCCccc
Q 002280          535 FSGSILKIKRPKEF  548 (943)
Q Consensus       535 l~Gr~LkV~rp~d~  548 (943)
                      |.|+.|+|-....|
T Consensus       102 i~gRtirVDHv~~Y  115 (219)
T KOG0126|consen  102 ILGRTIRVDHVSNY  115 (219)
T ss_pred             ecceeEEeeecccc
Confidence            99999999876555

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

Probab=98.82  E-value=9.5e-09  Score=97.47  Aligned_cols=78  Identities=22%  Similarity=0.393  Sum_probs=72.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .|||.++...+++++|.+.|..||+|+.|.|-.|  ++-.+|||+|+|.+...|++|+.+|||..|.|++|.|.|+....
T Consensus        74 Ii~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~g  153 (170)
T KOG0130|consen   74 IIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKG  153 (170)
T ss_pred             EEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecC
Confidence            8999999999999999999999999999988776  45569999999999999999999999999999999999985433

>PF13893 RRM_5: RNA recognition motif

Probab=98.80  E-value=1.3e-08  Score=84.22  Aligned_cols=55  Identities=15%  Similarity=0.146  Sum_probs=49.3

Q ss_pred             HHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          684 VRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       684 lre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      |..+|++||+|+.|.+.++.    .+++||+|.+.++|..|++.|||..|+++.+.|..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            56889999999999998865    57899999999999999999999999999988865

(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 ....

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=98.80  E-value=7.3e-09  Score=107.18  Aligned_cols=76  Identities=17%  Similarity=0.275  Sum_probs=67.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+||||||++.+..+.|+..|++||.|....|+.|  ++.++||+||+|.+.++|.+|++.-| -.|+||+..|..|.-
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchhhh
Confidence            39999999999999999999999999999999888  56789999999999999999998654 568899888877644

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

Probab=98.80  E-value=1.6e-08  Score=108.64  Aligned_cols=79  Identities=23%  Similarity=0.353  Sum_probs=66.7

Q ss_pred             cCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee--ecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI--QREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       459 ~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~--~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .....++|+|.|||+..-+-||+.+|.+||.+..+          .+.+  -.||||+||+|.++++|++|-+ |+|..+
T Consensus        92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldV----------EIIfNERGSKGFGFVTmen~~dadRARa~LHgt~V  161 (376)
T KOG0125|consen   92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDV----------EIIFNERGSKGFGFVTMENPADADRARAELHGTVV  161 (376)
T ss_pred             CCCCCceeEeecCCccccCccHHHHHHhhCceeeE----------EEEeccCCCCccceEEecChhhHHHHHHHhhccee
Confidence            34567899999999999999999999999954332          2222  2489999999999999999999 999999


Q ss_pred             ccccccccCCcc
Q 002280          536 SGSILKIKRPKE  547 (943)
Q Consensus       536 ~Gr~LkV~rp~d  547 (943)
                      .||+|.|+..+.
T Consensus       162 EGRkIEVn~ATa  173 (376)
T KOG0125|consen  162 EGRKIEVNNATA  173 (376)
T ss_pred             eceEEEEeccch
Confidence            999999996553

>smart00362 RRM_2 RNA recognition motif

Probab=98.79  E-value=1.7e-08  Score=85.36  Aligned_cols=71  Identities=34%  Similarity=0.476  Sum_probs=57.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      +|||+|||..+++++|+++|.+||.+..+.       +.... +.++|+|||+|.+.++|..|+. ++|..+.|+.|.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~-------~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVK-------IPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEE-------EecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            589999999999999999999988432210       11111 4567999999999999999999 99999999988763

>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]

Probab=98.79  E-value=7.6e-09  Score=102.50  Aligned_cols=70  Identities=27%  Similarity=0.386  Sum_probs=61.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee-cCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~-~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      .++||||||+..+|+.+|..+|..||            ++..+++. ...|||||||.++-+|+.|+. |||..|.|..|
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG------------~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~   77 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYG------------PLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRI   77 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcC------------cceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceE
Confidence            57999999999999999999999988            45555554 457899999999999999999 99999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      +|..
T Consensus        78 rVE~   81 (195)
T KOG0107|consen   78 RVEL   81 (195)
T ss_pred             EEEe
Confidence            8873

>PF13893 RRM_5: RNA recognition motif

Probab=98.77  E-value=2.5e-08  Score=82.53  Aligned_cols=56  Identities=27%  Similarity=0.396  Sum_probs=50.6

Q ss_pred             HHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          567 VMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       567 L~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      |.++|++||.|..+.+....   +++|||+|.+.++|..|+..|||..|.|++|.|.+|
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            67899999999999987653   699999999999999999999999999999999875

(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=98.77  E-value=4.2e-08  Score=83.44  Aligned_cols=72  Identities=25%  Similarity=0.517  Sum_probs=66.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC-CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~-~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|+|+|||..+++++|.++|+.||.|..+.+..+.. ...|+|||+|.+.++|..|+..+++..+.|+.|.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            489999999999999999999999999999887633 458999999999999999999999999999999885

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).

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=98.76  E-value=7.9e-09  Score=106.90  Aligned_cols=75  Identities=20%  Similarity=0.216  Sum_probs=62.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      -.+||||||+|.++.+.|+.+|++||.+...      ..|-+..+++|+||+||+|.+.+.|++|++--.-.|.||+..|
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~ea------vvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNc   85 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEA------VVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANC   85 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEE------EEEeccCCccccceeeEEeecHHHHHHHhcCCCCccccccccc
Confidence            3589999999999999999999999975432      2556778999999999999999999999995556777776544


Q ss_pred             c
Q 002280          543 K  543 (943)
Q Consensus       543 ~  543 (943)
                      .
T Consensus        86 n   86 (247)
T KOG0149|consen   86 N   86 (247)
T ss_pred             c
Confidence            3

>PLN03213 repressor of silencing 3; Provisional

Probab=98.75  E-value=9.1e-09  Score=114.74  Aligned_cols=75  Identities=19%  Similarity=0.363  Sum_probs=63.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCH--HHHHHHHH-ccCCccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA--EDASAALC-CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~--edA~~Al~-LnG~~l~Gr  538 (943)
                      ...+||||||++.+|+++|..+|..||.+..+.       |+ ..+|  +|||||+|.+.  .++.+||. |||..+.|+
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVE-------Ip-RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR   78 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVE-------FV-RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG   78 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEE-------Ee-cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence            356999999999999999999999999754432       12 2344  99999999987  78999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|..++
T Consensus        79 ~LKVNKAK   86 (759)
T PLN03213         79 RLRLEKAK   86 (759)
T ss_pred             eeEEeecc
Confidence            99999554

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.69  E-value=2.4e-09  Score=109.07  Aligned_cols=139  Identities=19%  Similarity=0.260  Sum_probs=113.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-----ecCCCeeeEEeCCHHHHHHHHH-ccCC
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-----QREKGQAFVEFLTAEDASAALC-CDGC  533 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-----~~skGyAFVeF~s~edA~~Al~-LnG~  533 (943)
                      ....+||||+||-..++|+-|-++|-+.|            ||+.+.+     +..+ ||||.|.+.-.+..|++ +||.
T Consensus         6 ae~drtl~v~n~~~~v~eelL~ElfiqaG------------PV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~   72 (267)
T KOG4454|consen    6 AEMDRTLLVQNMYSGVSEELLSELFIQAG------------PVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGD   72 (267)
T ss_pred             cchhhHHHHHhhhhhhhHHHHHHHhhccC------------ceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccc
Confidence            34578999999999999999999997766            4444433     3334 99999999999999999 9999


Q ss_pred             ccccccccccCCccceeEEEEEec----CCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHH
Q 002280          534 SFSGSILKIKRPKEFVEVAIFIGG----ISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIA  608 (943)
Q Consensus       534 ~l~Gr~LkV~rp~d~~~~~LfV~N----Lp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~  608 (943)
                      .+.+.+++|         +++.|+    |...++++.+...|+.-|++..+++..+. +.++.++|+.+...-....|+.
T Consensus        73 ~l~~~e~q~---------~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~  143 (267)
T KOG4454|consen   73 DLEEDEEQR---------TLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFALD  143 (267)
T ss_pred             hhccchhhc---------ccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHhh
Confidence            999999988         566666    77788999999999999999999987763 4678899999988777778887


Q ss_pred             HhCCCccCCeEE
Q 002280          609 GLNGLKVGGQVL  620 (943)
Q Consensus       609 ~LnG~~~~gr~L  620 (943)
                      ...+..+.-+++
T Consensus       144 ~y~~l~~~~~~~  155 (267)
T KOG4454|consen  144 LYQGLELFQKKV  155 (267)
T ss_pred             hhcccCcCCCCc
Confidence            777765543333

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=98.68  E-value=2.1e-08  Score=104.16  Aligned_cols=79  Identities=25%  Similarity=0.305  Sum_probs=68.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ...+|-|.||+.+++|++|.+||-+||.+..      ..++++..||.++|||||.|.+.++|.+||. |||.-+..--|
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~r------vylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LIL  261 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITR------VYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLIL  261 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccce------eEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEE
Confidence            5678999999999999999999999886433      2366888999999999999999999999999 99998887777


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.+.+
T Consensus       262 rvEwsk  267 (270)
T KOG0122|consen  262 RVEWSK  267 (270)
T ss_pred             EEEecC
Confidence            776543

>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.68  E-value=1.7e-08  Score=102.76  Aligned_cols=81  Identities=16%  Similarity=0.343  Sum_probs=76.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +||||+|...+++.-|...|=+||.|..|.++.|  .+..+||+||+|.-.++|..||..||+..+.|++|+|.+|.|..
T Consensus        12 tlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~k   91 (298)
T KOG0111|consen   12 TLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEK   91 (298)
T ss_pred             eEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcc
Confidence            9999999999999999999999999999999888  56789999999999999999999999999999999999998876


Q ss_pred             CcC
Q 002280          630 SIM  632 (943)
Q Consensus       630 ~~~  632 (943)
                      ...
T Consensus        92 ike   94 (298)
T KOG0111|consen   92 IKE   94 (298)
T ss_pred             ccC
Confidence            543

>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]

Probab=98.67  E-value=3.9e-08  Score=112.96  Aligned_cols=76  Identities=24%  Similarity=0.439  Sum_probs=72.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|||||+|+.+++++|.++|+..|.|.+++++.|  +|..+||||++|.+.++|..|+..|||..+.|++|+|.|+..
T Consensus        20 ~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   20 SVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             ceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            8999999999999999999999999999999988  567799999999999999999999999999999999998754

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.64  E-value=4.5e-08  Score=104.17  Aligned_cols=78  Identities=24%  Similarity=0.327  Sum_probs=70.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..+-+||||+-|++.++|..|+..|+.||.+..   |   .+|.+..+|.++|||||+|.+.-+...|.. .+|++|.|+
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG~Ikr---i---rlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgr  171 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKR---I---RLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGR  171 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcCccee---E---EEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCc
Confidence            367899999999999999999999999997443   3   367888999999999999999999999999 999999999


Q ss_pred             ccccc
Q 002280          539 ILKIK  543 (943)
Q Consensus       539 ~LkV~  543 (943)
                      .|.|-
T Consensus       172 ri~VD  176 (335)
T KOG0113|consen  172 RILVD  176 (335)
T ss_pred             EEEEE
Confidence            98775

>smart00361 RRM_1 RNA recognition motif

Probab=98.63  E-value=9.1e-08  Score=83.15  Aligned_cols=59  Identities=19%  Similarity=0.312  Sum_probs=51.4

Q ss_pred             HHHHHHHHh----hcCCeeEEE-EEec--C--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          564 SKMVMEIVC----AFGPLKAYH-FEVN--E--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       564 eedL~e~Fs----~fG~I~~v~-l~~d--~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      +++|+++|+    +||.|..|. |+.+  +  +.++|+|||+|.+.++|.+|+..|||..+.|+.|.+
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            567788887    999999985 5554  3  567999999999999999999999999999999986

>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]

Probab=98.59  E-value=4.7e-08  Score=112.30  Aligned_cols=79  Identities=23%  Similarity=0.331  Sum_probs=70.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      +.|||||||+.+++++|..+|+..|.+..+      ..+.+..+|..+|||||+|.+.++|..|+. |||..+.|++|+|
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 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSF------RLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRV   92 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCcccee------eecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEe
Confidence            789999999999999999999887764443      466788899999999999999999999999 9999999999999


Q ss_pred             cCCccc
Q 002280          543 KRPKEF  548 (943)
Q Consensus       543 ~rp~d~  548 (943)
                      .++...
T Consensus        93 ~~~~~~   98 (435)
T KOG0108|consen   93 NYASNR   98 (435)
T ss_pred             eccccc
Confidence            877643

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.58  E-value=1.1e-07  Score=86.64  Aligned_cols=73  Identities=21%  Similarity=0.270  Sum_probs=62.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee---cCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ---REKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~---~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      -++-|||.|||+.+|.+++.++|..||.            |..+.+|   .-+|.|||.|.+..+|.+|+. |+|..+.+
T Consensus        17 vnriLyirNLp~~ITseemydlFGkyg~------------IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~   84 (124)
T KOG0114|consen   17 VNRILYIRNLPFKITSEEMYDLFGKYGT------------IRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDN   84 (124)
T ss_pred             hheeEEEecCCccccHHHHHHHhhcccc------------eEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCC
Confidence            3678999999999999999999998884            4445444   357899999999999999999 99999999


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      +.|.|..+.
T Consensus        85 ryl~vlyyq   93 (124)
T KOG0114|consen   85 RYLVVLYYQ   93 (124)
T ss_pred             ceEEEEecC
Confidence            999876443

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

Probab=98.57  E-value=3e-07  Score=104.55  Aligned_cols=146  Identities=20%  Similarity=0.263  Sum_probs=104.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCC---eeeEEeCCHHHHHHHHH---ccC-
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG---QAFVEFLTAEDASAALC---CDG-  532 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skG---yAFVeF~s~edA~~Al~---LnG-  532 (943)
                      ..-+++||||+||+.++|++|...|-.||..  +..++.  .......-..+|   |+|+.|.+...+..-|.   ... 
T Consensus       256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~--~VdWP~--k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~  331 (520)
T KOG0129|consen  256 PRYSRKVFVGGLPWDITEAQINASFGQFGSV--KVDWPG--KANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEG  331 (520)
T ss_pred             cccccceeecCCCccccHHHHHhhcccccce--EeecCC--CccccccCCCCCcccEEEEEecchHHHHHHHHHHhhccc
Confidence            3457899999999999999999999999853  122321  111112223455   99999999998887665   221 


Q ss_pred             -Ccc-------ccccccccCCc----ccee---------EEEEEecCCCCCCHHHHHHHHh-hcCCeeEEEEEecCCC--
Q 002280          533 -CSF-------SGSILKIKRPK----EFVE---------VAIFIGGISRTLSSKMVMEIVC-AFGPLKAYHFEVNEDH--  588 (943)
Q Consensus       533 -~~l-------~Gr~LkV~rp~----d~~~---------~~LfV~NLp~~~teedL~e~Fs-~fG~I~~v~l~~d~~~--  588 (943)
                       ..|       ..+.+.|..+.    +|..         .|||||+||..++.++|..+|. -||.|..+-|..|...  
T Consensus       332 ~~yf~vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KY  411 (520)
T KOG0129|consen  332 NYYFKVSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKY  411 (520)
T ss_pred             ceEEEEecCcccccceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCC
Confidence             111       22334444221    1111         1999999999999999999999 6999999988777443  


Q ss_pred             CCCEEEEeecChhHHHHHHHH
Q 002280          589 EEPCAFIEYVDQLVTPKAIAG  609 (943)
Q Consensus       589 skG~aFVeF~~~e~A~kAl~~  609 (943)
                      -+|-|-|+|.+..+-.+||.+
T Consensus       412 PkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  412 PKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             CCCcceeeecccHHHHHHHhh
Confidence            489999999999999999864

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=98.55  E-value=9.6e-08  Score=104.18  Aligned_cols=159  Identities=18%  Similarity=0.234  Sum_probs=116.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      .|-+.+||+++|+.++.+||.+--.+.+  ...+ .+.+..-.|+-.|-|||.|...++|+.||.-+...|+-+-|.+.|
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            5778999999999999999953221111  0111 123333347788999999999999999998666666666555543


Q ss_pred             Ccc------------------------------ce-----eEEEEEecCCCCCCHHHHHHHHhhcCCe-eE--EEEEec-
Q 002280          545 PKE------------------------------FV-----EVAIFIGGISRTLSSKMVMEIVCAFGPL-KA--YHFEVN-  585 (943)
Q Consensus       545 p~d------------------------------~~-----~~~LfV~NLp~~~teedL~e~Fs~fG~I-~~--v~l~~d-  585 (943)
                      .+.                              ..     ..+|-+.+||+..+.++|.++|..|..- ..  |.++.+ 
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            220                              00     0189999999999999999999998643 22  566555 


Q ss_pred             CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          586 EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       586 ~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+.-.|-|||+|.+.+.|..|...-+...+..+-|.|-.+.
T Consensus       320 qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S  360 (508)
T KOG1365|consen  320 QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS  360 (508)
T ss_pred             CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence            45568999999999999999999888887788999887653

>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=98.55  E-value=1.3e-07  Score=80.40  Aligned_cols=72  Identities=35%  Similarity=0.456  Sum_probs=56.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      +|+|+|||+.+++++|+++|..+|.+..+       .+.....+...|+|||+|.+.++|..|+. +++..+.|+.|.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~-------~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESV-------RIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEE-------EEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            58999999999999999999998743221       11111112457999999999999999999 99999999998774

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).

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.55  E-value=5.4e-08  Score=116.01  Aligned_cols=163  Identities=20%  Similarity=0.258  Sum_probs=130.4

Q ss_pred             cccccCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC
Q 002280          455 QLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC  533 (943)
Q Consensus       455 ~~~~~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~  533 (943)
                      +.......+++||+|||+..+++.+|+..|..+|.+-.|       .|..-.++...-||||.|.+...|-.|+. +.+.
T Consensus       364 ~~~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~V-------DiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~  436 (975)
T KOG0112|consen  364 LKLDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEV-------DIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGP  436 (975)
T ss_pred             ccccchhhhhhhhhcCcccchhhhhhhhhhhhhcccccc-------ccccCCCCcccchhhhhhhccccCcccchhhcCC
Confidence            334456678999999999999999999999998863321       22233356777899999999999999988 8887


Q ss_pred             cccccc--ccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          534 SFSGSI--LKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       534 ~l~Gr~--LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      .|..-.  +.+..++......+++++|+..+....|..+|..||+|..|.+.    .+..|+||.|.+...++.|+..|-
T Consensus       437 ~I~~g~~r~glG~~kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~----hgq~yayi~yes~~~aq~a~~~~r  512 (975)
T KOG0112|consen  437 LIGNGTHRIGLGQPKSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYR----HGQPYAYIQYESPPAAQAATHDMR  512 (975)
T ss_pred             ccccCcccccccccccccceeeccCCCCCCChHHHHHHHhhccCcceeeecc----cCCcceeeecccCccchhhHHHHh
Confidence            664434  44444454445599999999999999999999999999988753    356799999999999999999999


Q ss_pred             CCccCC--eEEEEEEcccC
Q 002280          612 GLKVGG--QVLTAVQAVLD  628 (943)
Q Consensus       612 G~~~~g--r~L~V~~A~~~  628 (943)
                      |..|+|  +.|.|.+|.+.
T Consensus       513 gap~G~P~~r~rvdla~~~  531 (975)
T KOG0112|consen  513 GAPLGGPPRRLRVDLASPP  531 (975)
T ss_pred             cCcCCCCCcccccccccCC
Confidence            999976  56888877543

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

Probab=98.50  E-value=3e-07  Score=87.48  Aligned_cols=87  Identities=10%  Similarity=0.067  Sum_probs=75.2

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTN  730 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~LnG  730 (943)
                      .....+|++.++....+            .+||...|.-||+|++|.+--+ -+|+++||+.|+|++.++|++|+.+|||
T Consensus        69 SVEGwIi~VtgvHeEat------------Eedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng  136 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEAT------------EEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNG  136 (170)
T ss_pred             ceeeEEEEEeccCcchh------------HHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccc
Confidence            34578999999875444            3799999999999999998766 6899999999999999999999999999


Q ss_pred             CccCCCceEEEEeccccccc
Q 002280          731 DETNEKGERLEEVTDHKSIK  750 (943)
Q Consensus       731 r~~~~k~~~v~~~~~~~~~~  750 (943)
                      ..+-+.++.|.+.....+..
T Consensus       137 ~~ll~q~v~VDw~Fv~gp~~  156 (170)
T KOG0130|consen  137 AELLGQNVSVDWCFVKGPER  156 (170)
T ss_pred             hhhhCCceeEEEEEecCCcc
Confidence            99999999999988654433

>smart00360 RRM RNA recognition motif

Probab=98.48  E-value=3.5e-07  Score=76.88  Aligned_cols=70  Identities=37%  Similarity=0.463  Sum_probs=55.5

Q ss_pred             EcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       468 VgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      |+|||..+++++|+++|.+||.+..+.      ......++.++|||||+|.+.++|..|+. |++..+.|+.|.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~------i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVR------LVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEE------EEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            689999999999999999988532211      11111245668999999999999999999 99999999988763

>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.47  E-value=9.9e-08  Score=97.28  Aligned_cols=81  Identities=27%  Similarity=0.321  Sum_probs=68.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .-..++||||+|...+||.-|...|-+||.+..   |.   .-++-..++.+|||||+|.-.|+|.+||. ||+.+|.|+
T Consensus         7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~d---Iq---iPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~Gr   80 (298)
T KOG0111|consen    7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKD---IQ---IPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGR   80 (298)
T ss_pred             cccceeEEeccchHHHHHHHHHhccccccchhh---cc---cccchhcccccceeEEEeeccchhHHHhhcCchhhhcce
Confidence            345789999999999999999999999886332   22   22556678899999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|..++
T Consensus        81 tirVN~Ak   88 (298)
T KOG0111|consen   81 TIRVNLAK   88 (298)
T ss_pred             eEEEeecC
Confidence            99998544

>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]

Probab=98.45  E-value=2e-07  Score=94.60  Aligned_cols=76  Identities=28%  Similarity=0.349  Sum_probs=66.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ...|.|-||.+-+|.++|+-+|+.||.+..   |-   +-.+..|..++|||||-|....+|+.||+ |+|.+|.|+.|.
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgD---Vy---IPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr   86 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGD---VY---IPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR   86 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccc---ee---cccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence            457999999999999999999999996322   21   22566789999999999999999999999 999999999998


Q ss_pred             ccC
Q 002280          542 IKR  544 (943)
Q Consensus       542 V~r  544 (943)
                      |+-
T Consensus        87 Vq~   89 (256)
T KOG4207|consen   87 VQM   89 (256)
T ss_pred             ehh
Confidence            873

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.38  E-value=8.6e-07  Score=92.70  Aligned_cols=119  Identities=13%  Similarity=0.213  Sum_probs=98.8

Q ss_pred             eeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccccCCccceeE----------EEEEecCCCCCCHHHHHHHHhhc
Q 002280          506 VIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKRPKEFVEV----------AIFIGGISRTLSSKMVMEIVCAF  574 (943)
Q Consensus       506 ~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~rp~d~~~~----------~LfV~NLp~~~teedL~e~Fs~f  574 (943)
                      .-+.-.++||+.|.....-..+-. -++..+.-.++++.....|..+          +||+|.|...++++-|...|.+|
T Consensus       135 ~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kf  214 (290)
T KOG0226|consen  135 RPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSWEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKF  214 (290)
T ss_pred             CCCccCcccccCcchhhhhhhhccccccccccCcceeeccccccCCcccccCccccceeecccccccccHHHHHHHHHhc
Confidence            334557899999998877777766 5666666666777765544332          99999999999999999999999


Q ss_pred             CCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          575 GPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       575 G~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      -.....+++++  ++.++||+||-|.++.++..|+..|+|..++.++|.++.
T Consensus       215 psf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk  266 (290)
T KOG0226|consen  215 PSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK  266 (290)
T ss_pred             cchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence            88777788888  678899999999999999999999999999999998863

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=98.34  E-value=3e-06  Score=98.56  Aligned_cols=156  Identities=9%  Similarity=0.062  Sum_probs=119.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ....+-+.+.+++..+.++++||.-      . .++...+.++.......|-++|+|....++..|++-|.+.+-.+.+.
T Consensus       310 d~~y~~~~gm~fn~~~nd~rkfF~g------~-~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q  382 (944)
T KOG4307|consen  310 DKYYNNYKGMEFNNDFNDGRKFFPG------R-NAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQ  382 (944)
T ss_pred             hhheeeecccccccccchhhhhcCc------c-cccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhccee
Confidence            3455667899999999999999932      2 12221122333333447899999999999999999888888888888


Q ss_pred             ccCCccce--eE-----------------------------------------EEEEecCCCCCCHHHHHHHHhhcCCee
Q 002280          542 IKRPKEFV--EV-----------------------------------------AIFIGGISRTLSSKMVMEIVCAFGPLK  578 (943)
Q Consensus       542 V~rp~d~~--~~-----------------------------------------~LfV~NLp~~~teedL~e~Fs~fG~I~  578 (943)
                      |..+.+..  ..                                         +|||..||..+++.++.++|...-.|+
T Consensus       383 ~~P~g~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ve  462 (944)
T KOG4307|consen  383 TGPPGNLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVE  462 (944)
T ss_pred             ecCCCccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhh
Confidence            87544211  00                                         999999999999999999999877776


Q ss_pred             E-EEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          579 A-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       579 ~-v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      + |.|.+. ++..++.|||.|..++.+..|+..-+.+.++.+.|.|..
T Consensus       463 d~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~s  510 (944)
T KOG4307|consen  463 DFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDS  510 (944)
T ss_pred             heeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeec
Confidence            6 655444 566789999999999999999887787888889999874

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.34  E-value=5.1e-07  Score=95.66  Aligned_cols=83  Identities=20%  Similarity=0.251  Sum_probs=68.6

Q ss_pred             CCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCC--cceeEEEEeCCHHHHHHHHHHh
Q 002280          651 LKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN--ISTIQACEGNENTASAGVGQNL  728 (943)
Q Consensus       651 ~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~--~~G~~FVeF~~~e~A~~Ai~~L  728 (943)
                      ...|++||.|.|+|...+.   +    +++.+.++++|++||+|..|.|...+...  -.--+||+|...++|.+|+--|
T Consensus       277 l~~ptkvlllrnmVg~gev---d----~elede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdl  349 (378)
T KOG1996|consen  277 LKCPTKVLLLRNMVGAGEV---D----EELEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDL  349 (378)
T ss_pred             HhcchHHHHhhhhcCcccc---c----HHHHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhc
Confidence            4678999999999998886   2    45567899999999999999998753221  1124799999999999999999


Q ss_pred             CCCccCCCceEE
Q 002280          729 TNDETNEKGERL  740 (943)
Q Consensus       729 nGr~~~~k~~~v  740 (943)
                      ||+.|++++...
T Consensus       350 nGRyFGGr~v~A  361 (378)
T KOG1996|consen  350 NGRYFGGRVVSA  361 (378)
T ss_pred             CCceecceeeeh
Confidence            999999998764

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.33  E-value=5.6e-08  Score=115.56  Aligned_cols=147  Identities=20%  Similarity=0.232  Sum_probs=121.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      +...++||.||++.+.+.+|...|..++.   +..+.   .++.+..++-+|+||++|..++.+.+|+.++...+.|+. 
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~---~e~vq---i~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~-  737 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGT---IEVVQ---IVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKI-  737 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccch---hhhHH---HHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhh-
Confidence            55678999999999999999999988774   22222   223455677899999999999999999997777776633 


Q ss_pred             cccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE
Q 002280          541 KIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  619 (943)
Q Consensus       541 kV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~  619 (943)
                                 .|+|.|+|+..|.+.++.+|.++|.+.++.++.. .+..+|.|||.|.+..++..++...++..+.-+.
T Consensus       738 -----------~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~  806 (881)
T KOG0128|consen  738 -----------SVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENN  806 (881)
T ss_pred             -----------hhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcC
Confidence                       7899999999999999999999999999887666 3567999999999999999999888887776666


Q ss_pred             EEEEEc
Q 002280          620 LTAVQA  625 (943)
Q Consensus       620 L~V~~A  625 (943)
                      +.|...
T Consensus       807 ~~v~vs  812 (881)
T KOG0128|consen  807 GEVQVS  812 (881)
T ss_pred             cccccc
Confidence            666543

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=98.23  E-value=5.7e-06  Score=96.32  Aligned_cols=180  Identities=9%  Similarity=-0.067  Sum_probs=116.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+-+.++++.....|++++|.-. .|.++.|..+  .....|.++|+|....++++|++ -|...+-.+.+.+..+....
T Consensus       313 y~~~~gm~fn~~~nd~rkfF~g~-~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~-rn~~~~~~R~~q~~P~g~~~  390 (944)
T KOG4307|consen  313 YNNYKGMEFNNDFNDGRKFFPGR-NAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFT-RNPSDDVNRPFQTGPPGNLG  390 (944)
T ss_pred             eeeecccccccccchhhhhcCcc-cccccchhhhhcCCCcCCceEEEecCcchHHHHHh-cCchhhhhcceeecCCCccc
Confidence            34457888889999999998652 2333444333  23348999999999999999986 45556667777775432211


Q ss_pred             CcC--------C---CCCCC-CCCCC------CCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCC
Q 002280          630 SIM--------D---NSGNP-PFHGI------PKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARF  691 (943)
Q Consensus       630 ~~~--------~---~~~~~-~~~~i------p~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskF  691 (943)
                      -..        .   ...+. +-...      +....+.....+.||+|..|....++            .++-..|.+-
T Consensus       391 ~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~------------~~~v~~f~~~  458 (944)
T KOG4307|consen  391 RNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPI------------VPPVNKFMGA  458 (944)
T ss_pred             cccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccc------------cchhhhhhhh
Confidence            100        0   00000 00000      11112234556889999998665444            3566667766


Q ss_pred             CCeEE-EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          692 GSVKS-VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       692 G~V~~-V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      -.|+. |.|.+-+++...+.|||.|...+++..|.+--+-.-++-+.|.|....+
T Consensus       459 ~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~~  513 (944)
T KOG4307|consen  459 AAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIAD  513 (944)
T ss_pred             hhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeechhh
Confidence            67777 7777778888889999999999999998887777777777777655543

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=98.18  E-value=3.4e-06  Score=99.54  Aligned_cols=75  Identities=24%  Similarity=0.461  Sum_probs=70.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      |||||+|+..+++.||..+|+.||.|.+|.++.    ++|||||.+....+|.+|+.+|+...+.++.|+|.||.-...
T Consensus       423 TLwvG~i~k~v~e~dL~~~feefGeiqSi~li~----~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~  497 (894)
T KOG0132|consen  423 TLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP----PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGP  497 (894)
T ss_pred             eeeeccccchhhHHHHHHHHHhcccceeEeecc----CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCc
Confidence            999999999999999999999999999998865    599999999999999999999999999999999999966544

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.18  E-value=2.8e-07  Score=109.73  Aligned_cols=224  Identities=14%  Similarity=0.099  Sum_probs=162.9

Q ss_pred             CCeEEEcCCCCCCCHH-HHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEK-ALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEe-dL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      .+..++.|+.+..... ..+..|..++.+-   .+.+.   ..-.-.....++++++.....+..|....+-.+.++.+.
T Consensus       571 ~~e~~s~~v~p~~~~ke~~~~~~k~~~~ve---kv~~p---~~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~a  644 (881)
T KOG0128|consen  571 RREKESTNVYPEQQKKEIQRRQFKGEGNVE---KVNGP---KRGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSAA  644 (881)
T ss_pred             hhhhcccCCCcchhhHHhhHHHhhcccccc---cccCc---cccccccccchhhhhhccccchhhcccccccccCCcccc
Confidence            4567788887776665 4556665555322   12111   000111223378999999999999999889888888887


Q ss_pred             ccCCc--c------cee------EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEE--ecCCCCCCEEEEeecChhHHHH
Q 002280          542 IKRPK--E------FVE------VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE--VNEDHEEPCAFIEYVDQLVTPK  605 (943)
Q Consensus       542 V~rp~--d------~~~------~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~--~d~~~skG~aFVeF~~~e~A~k  605 (943)
                      |....  .      +.+      .++||.||+..+.+++|...|..+|.+..+++.  .+.+.-+|+||++|..++.+.+
T Consensus       645 v~~ad~~~~~~~~kvs~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~a  724 (881)
T KOG0128|consen  645 VGLADAEEKEENFKVSPNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGA  724 (881)
T ss_pred             CCCCCchhhhhccCcCchHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhh
Confidence            76321  1      000      189999999999999999999999998887664  3456678999999999999999


Q ss_pred             HHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHH
Q 002280          606 AIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVR  685 (943)
Q Consensus       606 Al~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlr  685 (943)
                      |+....+..++...+.                                      |.|.....+            .+.++
T Consensus       725 aV~f~d~~~~gK~~v~--------------------------------------i~g~pf~gt------------~e~~k  754 (881)
T KOG0128|consen  725 AVAFRDSCFFGKISVA--------------------------------------ISGPPFQGT------------KEELK  754 (881)
T ss_pred             hhhhhhhhhhhhhhhh--------------------------------------eeCCCCCCc------------hHHHH
Confidence            9986666555522222                                      222222222            24578


Q ss_pred             HHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          686 LECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       686 e~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      .+|.++|+|+++.++...+|.-+|.+||.|.+..+|..+...+.+.-++...+.+..
T Consensus       755 ~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  755 SLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQV  811 (881)
T ss_pred             hhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence            999999999999999888999999999999999999999888888877776666533

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]

Probab=98.17  E-value=4e-06  Score=85.73  Aligned_cols=77  Identities=14%  Similarity=0.284  Sum_probs=69.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc-CCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF-GPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f-G~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .++|..+|..+.+..+..+|.+| |.|..+++.++  +|.++|||||+|++.+.|.-|...||++.|.++.|.|.+-.|.
T Consensus        51 ~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen   51 VVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE  130 (214)
T ss_pred             ceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence            78899999999999999999998 78888888777  6888999999999999999999999999999999999876554

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=98.17  E-value=7.7e-07  Score=97.66  Aligned_cols=147  Identities=13%  Similarity=0.078  Sum_probs=113.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIK  543 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~  543 (943)
                      ..|.|.||.+++|.++++.||...|.+-.+...+   .+-++.+......|||.|.+...+..|..|.++.|-|+.|.|.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp---~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~   84 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYP---NVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVR   84 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccC---CCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEE
Confidence            3799999999999999999998888754443333   2344455556778999999999999999999988888887776


Q ss_pred             CCccceeE------------------------------------------------------------EEEEecCCCCCC
Q 002280          544 RPKEFVEV------------------------------------------------------------AIFIGGISRTLS  563 (943)
Q Consensus       544 rp~d~~~~------------------------------------------------------------~LfV~NLp~~~t  563 (943)
                      ...+...+                                                            +++|++|+..+.
T Consensus        85 p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~  164 (479)
T KOG4676|consen   85 PYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAI  164 (479)
T ss_pred             ecCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhc
Confidence            21110000                                                            799999999999


Q ss_pred             HHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          564 SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       564 eedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                      ..++.++|..+|.|....+.  .+....+|.|+|........|+. ++|+.+.
T Consensus       165 l~e~~e~f~r~Gev~ya~~a--sk~~s~~c~~sf~~qts~~halr-~~gre~k  214 (479)
T KOG4676|consen  165 LPESGESFERKGEVSYAHTA--SKSRSSSCSHSFRKQTSSKHALR-SHGRERK  214 (479)
T ss_pred             chhhhhhhhhcchhhhhhhh--ccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence            99999999999998776542  23346688899999998888887 6777765

>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=98.14  E-value=3e-06  Score=91.90  Aligned_cols=76  Identities=12%  Similarity=0.193  Sum_probs=71.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|||.-|.+.++.++|.-+|+.||+|.+|.|++|  ++-+.-||||+|.+.+++++|.-.|++..|.++.|.|.++..
T Consensus       241 VLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS  318 (479)
T KOG0415|consen  241 VLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS  318 (479)
T ss_pred             eEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence            8999999999999999999999999999999999  455678999999999999999999999999999999987643

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.13  E-value=8.5e-06  Score=88.81  Aligned_cols=80  Identities=18%  Similarity=0.362  Sum_probs=70.4

Q ss_pred             CCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHH-HhCCCccCCeEEEE
Q 002280          544 RPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIA-GLNGLKVGGQVLTA  622 (943)
Q Consensus       544 rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~-~LnG~~~~gr~L~V  622 (943)
                      .|.|..-.+|||++|-..+++.+|++.|.+||.|++|.++.    .+++|||+|.+.++|+.|.. .+|...|.|+.|.|
T Consensus       222 pPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~----~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i  297 (377)
T KOG0153|consen  222 PPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP----RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKI  297 (377)
T ss_pred             CCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec----ccccceeeehhhHHHHHHHHhhcceeeecceEEEE
Confidence            45666666999999999999999999999999999998866    57899999999999998775 46777789999999


Q ss_pred             EEccc
Q 002280          623 VQAVL  627 (943)
Q Consensus       623 ~~A~~  627 (943)
                      .|..+
T Consensus       298 ~Wg~~  302 (377)
T KOG0153|consen  298 KWGRP  302 (377)
T ss_pred             EeCCC
Confidence            99877

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.08  E-value=2.7e-06  Score=93.74  Aligned_cols=160  Identities=18%  Similarity=0.176  Sum_probs=122.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCC-ccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGC-SFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~-~l~Gr~L  540 (943)
                      ...++|+|++...+.+..+..++..+|.....      .....-....++||+++.|...+.+..||++.+. .+.+..+
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~------~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~  160 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDA------RSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKG  160 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccc------hhhhhccccccccceeeccccHHHHHHHHHhhhccccccccc
Confidence            46789999999999999888888777642221      0112234467899999999999999999997774 4444333


Q ss_pred             ccc-------CCcc-------ceeEEEE-EecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHH
Q 002280          541 KIK-------RPKE-------FVEVAIF-IGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVT  603 (943)
Q Consensus       541 kV~-------rp~d-------~~~~~Lf-V~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A  603 (943)
                      ..-       ++..       ....++| |++|++.++.++|+..|..+|.|..+++..+.  +..+|++||.|.....+
T Consensus       161 ~~dl~~~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~  240 (285)
T KOG4210|consen  161 EKDLNTRRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSK  240 (285)
T ss_pred             cCcccccccccccchhcccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhH
Confidence            221       1111       1112666 99999999999999999999999999987764  45689999999999999


Q ss_pred             HHHHHHhCCCccCCeEEEEEEcccC
Q 002280          604 PKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       604 ~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      ..|+.. +...+.++++.+.+..+.
T Consensus       241 ~~~~~~-~~~~~~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  241 KLALND-QTRSIGGRPLRLEEDEPR  264 (285)
T ss_pred             HHHhhc-ccCcccCcccccccCCCC
Confidence            999987 888999999999877554

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.07  E-value=1.5e-06  Score=89.07  Aligned_cols=149  Identities=13%  Similarity=0.077  Sum_probs=116.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||+||...++++-|.++|-+.|+|..|.|..+.+....||||.|.+..++.-|++.|||..+.+..|.+..-.-+.. 
T Consensus        11 tl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~sh-   89 (267)
T KOG4454|consen   11 TLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNSH-   89 (267)
T ss_pred             HHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccCCCc-
Confidence            8999999999999999999999999999999887666656999999999999999999999999999888763211000 


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeE
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQ  711 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~  711 (943)
                                                         +.|   +..--.+   .+.+.|+.-|.+.-+.++.+..|....++
T Consensus        90 -----------------------------------apl---d~r~~~e---i~~~v~s~a~p~~~~R~~~~~d~rnrn~~  128 (267)
T KOG4454|consen   90 -----------------------------------APL---DERVTEE---ILYEVFSQAGPIEGVRIPTDNDGRNRNFG  128 (267)
T ss_pred             -----------------------------------chh---hhhcchh---hheeeecccCCCCCccccccccCCccCcc
Confidence                                               000   1111111   23456788899999999999888888889


Q ss_pred             EEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          712 ACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       712 FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      |+.+-.....-.|...-.|.....+...+..
T Consensus       129 ~~~~qr~~~~P~~~~~y~~l~~~~~~~~~gg  159 (267)
T KOG4454|consen  129 FVTYQRLCAVPFALDLYQGLELFQKKVTIGG  159 (267)
T ss_pred             chhhhhhhcCcHHhhhhcccCcCCCCccccc
Confidence            9998888777788888888777777666544

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=98.05  E-value=4.8e-07  Score=99.84  Aligned_cols=149  Identities=21%  Similarity=0.268  Sum_probs=119.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC-Ccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSGSILK  541 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG-~~l~Gr~Lk  541 (943)
                      ..||||||.+.++..+|..+|...-       ++....+     -.-.|||||.+.+...|.+|++ ++| ..+.|+.+.
T Consensus         2 nklyignL~p~~~psdl~svfg~ak-------~~~~g~f-----l~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e   69 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAK-------IPGSGQF-----LVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQE   69 (584)
T ss_pred             CcccccccCCCCChHHHHHHhcccc-------CCCCcce-----eeecceeeccCCchhhhhhhHHhhchhhhhcCceee
Confidence            4699999999999999999995531       1111111     1237899999999999999999 998 589999988


Q ss_pred             ccC--CccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE
Q 002280          542 IKR--PKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV  619 (943)
Q Consensus       542 V~r--p~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~  619 (943)
                      |..  ++.....++.|.|+|+.+.++.|..++..||.+..|..+. ++...-..-|+|...+.+..||..|+|..|....
T Consensus        70 ~~~sv~kkqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvn-t~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~  148 (584)
T KOG2193|consen   70 VEHSVPKKQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVN-TDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQH  148 (584)
T ss_pred             ccchhhHHHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhc-cchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhh
Confidence            864  3333334899999999999999999999999999987532 3334455668899999999999999999999999


Q ss_pred             EEEEEc
Q 002280          620 LTAVQA  625 (943)
Q Consensus       620 L~V~~A  625 (943)
                      +.|.|-
T Consensus       149 ~k~~Yi  154 (584)
T KOG2193|consen  149 LKVGYI  154 (584)
T ss_pred             hhcccC
Confidence            998764

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]

Probab=98.04  E-value=3.4e-06  Score=86.20  Aligned_cols=76  Identities=21%  Similarity=0.211  Sum_probs=62.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      .--+||+.||..+.+.+|..+|.+|+.     .+.-...-.+..||.|+|||||+|.+.+.|..|-+ ||+..|+|+-|.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g-----~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~  123 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGG-----TVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLE  123 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCC-----eeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheee
Confidence            346999999999999999999999852     11111122556789999999999999999999999 999999999887


Q ss_pred             cc
Q 002280          542 IK  543 (943)
Q Consensus       542 V~  543 (943)
                      |.
T Consensus       124 c~  125 (214)
T KOG4208|consen  124 CH  125 (214)
T ss_pred             eE
Confidence            65

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=98.00  E-value=1e-05  Score=92.14  Aligned_cols=81  Identities=15%  Similarity=0.247  Sum_probs=69.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .-.+.|||.+|...+-..+|+.||+.||.++|..      .|.+..+...+.|+||++.+.++|.+||. |+-..|.|+.
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAK------VVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrm  476 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAK------VVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRM  476 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHhcceecee------eeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhccee
Confidence            4468999999999999999999999999988742      23333444567899999999999999999 9999999999


Q ss_pred             ccccCCcc
Q 002280          540 LKIKRPKE  547 (943)
Q Consensus       540 LkV~rp~d  547 (943)
                      |.|.+.+.
T Consensus       477 ISVEkaKN  484 (940)
T KOG4661|consen  477 ISVEKAKN  484 (940)
T ss_pred             eeeeeccc
Confidence            99997764

>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]

Probab=97.99  E-value=1.3e-05  Score=92.35  Aligned_cols=149  Identities=20%  Similarity=0.200  Sum_probs=102.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .-..++|+|-|||..+++++|..+|..||.+.++..           +-...|.+||+|.+.-+|+.|+. |++..|.|+
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            345789999999999999999999999997655322           23458899999999999999999 999999999


Q ss_pred             cccccCCc--------------------------cceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCE
Q 002280          539 ILKIKRPK--------------------------EFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC  592 (943)
Q Consensus       539 ~LkV~rp~--------------------------d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~  592 (943)
                      .|+.....                          .|....+|+- |++..+..-+..+|+-+|.+.. +.   ...-.-.
T Consensus       141 ~~k~~~~~~~~~~~~~~~~~~~~~~~p~a~s~pgg~~~~~~~g~-l~P~~s~~~~~~~~~~~~~~~~-~~---~~~~~hq  215 (549)
T KOG4660|consen  141 RIKRPGGARRAMGLQSGTSFLNHFGSPLANSPPGGWPRGQLFGM-LSPTRSSILLEHISSVDGSSPG-RE---TPLLNHQ  215 (549)
T ss_pred             hhcCCCcccccchhcccchhhhhccchhhcCCCCCCcCCcceee-eccchhhhhhhcchhccCcccc-cc---ccchhhh
Confidence            98832110                          1111144443 8777777666667777777654 22   1111226


Q ss_pred             EEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          593 AFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       593 aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      -|++|.+..++..++..+ |..+.+........
T Consensus       216 ~~~~~~~~~s~a~~~~~~-G~~~s~~~~v~t~S  247 (549)
T KOG4660|consen  216 RFVEFADNRSYAFSEPRG-GFLISNSSGVITFS  247 (549)
T ss_pred             hhhhhccccchhhcccCC-ceecCCCCceEEec
Confidence            678888888886555533 66666555444433

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=97.95  E-value=1.2e-05  Score=87.76  Aligned_cols=76  Identities=25%  Similarity=0.276  Sum_probs=65.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH--ccCCcccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC--CDGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~--LnG~~l~G  537 (943)
                      .....+||||+|-..++|.+|++.|.+||            .+..+.+-..+++|||+|.+.+.|+.|.+  +|...|.|
T Consensus       225 D~~I~tLyIg~l~d~v~e~dIrdhFyqyG------------eirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G  292 (377)
T KOG0153|consen  225 DTSIKTLYIGGLNDEVLEQDIRDHFYQYG------------EIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVING  292 (377)
T ss_pred             ccceeEEEecccccchhHHHHHHHHhhcC------------CeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecc
Confidence            34567999999999999999999999988            44555666678899999999999999998  88889999


Q ss_pred             ccccccCCcc
Q 002280          538 SILKIKRPKE  547 (943)
Q Consensus       538 r~LkV~rp~d  547 (943)
                      +.|+|.|...
T Consensus       293 ~Rl~i~Wg~~  302 (377)
T KOG0153|consen  293 FRLKIKWGRP  302 (377)
T ss_pred             eEEEEEeCCC
Confidence            9999886544

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=97.92  E-value=9.1e-06  Score=97.53  Aligned_cols=157  Identities=14%  Similarity=0.171  Sum_probs=120.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +||++||+..+++.+|+..|..||.|..|.|... .++.--|+||.|.+...+..|+..|.|..|+...+.+.+..+   
T Consensus       374 TLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~---  450 (975)
T KOG0112|consen  374 TLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQP---  450 (975)
T ss_pred             hhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccccc---
Confidence            9999999999999999999999999999988665 455667999999999999999999999888655554443221   


Q ss_pred             cCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCccee
Q 002280          631 IMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTI  710 (943)
Q Consensus       631 ~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~  710 (943)
                                          ...+++-+++..+..-..+            ..+..+|..||.|..|.+-.   |  --|
T Consensus       451 --------------------kst~ttr~~sgglg~w~p~------------~~l~r~fd~fGpir~Idy~h---g--q~y  493 (975)
T KOG0112|consen  451 --------------------KSTPTTRLQSGGLGPWSPV------------SRLNREFDRFGPIRIIDYRH---G--QPY  493 (975)
T ss_pred             --------------------ccccceeeccCCCCCCChH------------HHHHHHhhccCcceeeeccc---C--Ccc
Confidence                                1234555566555321121            34678899999999877755   2  237


Q ss_pred             EEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccccc
Q 002280          711 QACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHKS  748 (943)
Q Consensus       711 ~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~~  748 (943)
                      +||.|.+...|+.|+..|-|..|++-...+...+....
T Consensus       494 ayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~  531 (975)
T KOG0112|consen  494 AYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPP  531 (975)
T ss_pred             eeeecccCccchhhHHHHhcCcCCCCCcccccccccCC
Confidence            89999999999999999999999977666555554433

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=97.91  E-value=2.6e-06  Score=89.68  Aligned_cols=43  Identities=26%  Similarity=0.474  Sum_probs=40.6

Q ss_pred             CceEEEEecCHHHHHHHHHHhhcCccCCceEEEEeechhhHHh
Q 002280          897 PGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRA  939 (943)
Q Consensus       897 ~g~v~v~f~~~~~a~~a~~~l~gr~f~~~~v~~~y~~~~~y~~  939 (943)
                      .|+|||+|...|+|++|++.||||||+|+.|++.+.|...|..
T Consensus       110 ~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~re  152 (260)
T KOG2202|consen  110 VGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFRE  152 (260)
T ss_pred             hhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhh
Confidence            6999999999999999999999999999999999999887753

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=97.84  E-value=3.1e-05  Score=88.27  Aligned_cols=75  Identities=15%  Similarity=0.284  Sum_probs=69.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC--CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~--~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .|+|.+|...+-..+|+.||++||.|.-.+|+.+.-  ..+.|+||++.+.++|.+||..|+...|.|+.|.|..|.
T Consensus       407 NlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK  483 (940)
T KOG4661|consen  407 NLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK  483 (940)
T ss_pred             ceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence            899999999999999999999999999999988732  347899999999999999999999999999999999875

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.84  E-value=7e-06  Score=87.24  Aligned_cols=44  Identities=30%  Similarity=0.486  Sum_probs=41.0

Q ss_pred             CCceEEEEecCHHHHHHHHHHhhcCccCCceEEEEeechhhHHh
Q 002280          896 EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRA  939 (943)
Q Consensus       896 ~~g~v~v~f~~~~~a~~a~~~l~gr~f~~~~v~~~y~~~~~y~~  939 (943)
                      ++--|||+|.+++.|.+|+--||||||+||+|.|.||.++.|.-
T Consensus       328 eavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs~  371 (378)
T KOG1996|consen  328 EAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFSN  371 (378)
T ss_pred             hhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhhh
Confidence            35679999999999999999999999999999999999999864

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

Probab=97.84  E-value=4.8e-05  Score=81.34  Aligned_cols=76  Identities=13%  Similarity=0.192  Sum_probs=69.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|+|.|||+.++++||+++|..||.+..+-|..+ .+.+.|+|-|.|...++|..|++.+||..+.|+.+.+....+
T Consensus        85 ~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   85 KVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             eeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            8999999999999999999999998888888777 467899999999999999999999999999999998876544

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=97.83  E-value=2.5e-05  Score=86.10  Aligned_cols=166  Identities=13%  Similarity=0.108  Sum_probs=104.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .|.|.||.+.++.++|+.||...|.|..+.|+...+     ...-.|||.|.+...+..|.. |....|-++.|.|..+.
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p~~   87 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRPYG   87 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEecC
Confidence            688999999999999999999999999999877533     235699999999999987765 88888888888887543


Q ss_pred             cCCCc------C-----CCCCCCCCCCCCCCcC---CCCCCCc---------------------eEEEeccCCCcCCCCC
Q 002280          627 LDGSI------M-----DNSGNPPFHGIPKHAL---PLLKKPT---------------------EVLKLKNVFNPEGFSS  671 (943)
Q Consensus       627 ~~~~~------~-----~~~~~~~~~~ip~~~~---~~~~~ps---------------------~vL~L~Nlv~~~~l~~  671 (943)
                      .....      .     ...+..++.++.....   +....|+                     +++++.+|+...    
T Consensus        88 ~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~----  163 (479)
T KOG4676|consen   88 DEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAA----  163 (479)
T ss_pred             CCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhh----
Confidence            21110      0     0011111111100000   0111222                     233333333322    


Q ss_pred             CChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC
Q 002280          672 LSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN  734 (943)
Q Consensus       672 i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~  734 (943)
                              ++.++-+.|..||.|....+.-..   ...+.-|+|..-.....|+.+ +|+.|.
T Consensus       164 --------~l~e~~e~f~r~Gev~ya~~ask~---~s~~c~~sf~~qts~~halr~-~gre~k  214 (479)
T KOG4676|consen  164 --------ILPESGESFERKGEVSYAHTASKS---RSSSCSHSFRKQTSSKHALRS-HGRERK  214 (479)
T ss_pred             --------cchhhhhhhhhcchhhhhhhhccC---CCcchhhhHhhhhhHHHHHHh-cchhhh
Confidence                    336788899999999876665432   333445888877777776554 566665

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

Probab=97.77  E-value=0.00028  Score=80.95  Aligned_cols=157  Identities=13%  Similarity=0.132  Sum_probs=97.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-----CCCCC---EEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-----DHEEP---CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-----~~skG---~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +||||+||+.++|+.|...|..||.+. |.+....     ...+|   |+|+.|++...+..-+.+-.   ++...+.+.
T Consensus       261 KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~---~~~~~~yf~  336 (520)
T KOG0129|consen  261 KVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS---EGEGNYYFK  336 (520)
T ss_pred             ceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh---hcccceEEE
Confidence            999999999999999999999999874 4554211     12356   99999999888776554322   122222222


Q ss_pred             EcccCCCcCC------CCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEE
Q 002280          624 QAVLDGSIMD------NSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSV  697 (943)
Q Consensus       624 ~A~~~~~~~~------~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V  697 (943)
                      ...+......      ......|.-  ..  ...-.|.++++|..+.-+...     +++-.|.+|+      ||.|.-|
T Consensus       337 vss~~~k~k~VQIrPW~laDs~fv~--d~--sq~lDprrTVFVGgvprpl~A-----~eLA~imd~l------yGgV~ya  401 (520)
T KOG0129|consen  337 VSSPTIKDKEVQIRPWVLADSDFVL--DH--NQPIDPRRTVFVGGLPRPLTA-----EELAMIMEDL------FGGVLYV  401 (520)
T ss_pred             EecCcccccceeEEeeEeccchhhh--cc--CcccCccceEEecCCCCcchH-----HHHHHHHHHh------cCceEEE
Confidence            1111111100      000000000  00  001247899999999765443     4455555544      9999999


Q ss_pred             EEecC-CCCCcceeEEEEeCCHHHHHHHHHH
Q 002280          698 NVVKY-GDSNISTIQACEGNENTASAGVGQN  727 (943)
Q Consensus       698 ~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~  727 (943)
                      -|..+ .-..-+|.|=|+|.+..+=.+||.+
T Consensus       402 GIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  402 GIDTDPKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             EeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence            99987 4455667788999998877666543

>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.77  E-value=2.2e-05  Score=85.38  Aligned_cols=79  Identities=16%  Similarity=0.131  Sum_probs=70.8

Q ss_pred             cCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       459 ~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ..++.+.|||--|.+-+|.++|.-+|+.||.+.+.      ..|.+..+|.+..||||+|.+.+++++|.- |++..|.+
T Consensus       235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sc------eVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDD  308 (479)
T KOG0415|consen  235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSC------EVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDD  308 (479)
T ss_pred             cCCCcceEEEEecCCcccccchhhHHhhcccceee------eEEecccccchhheeeeeecchhhHHHHHhhhcceeecc
Confidence            45678899999999999999999999999976554      356778899999999999999999999998 99999999


Q ss_pred             cccccc
Q 002280          538 SILKIK  543 (943)
Q Consensus       538 r~LkV~  543 (943)
                      +.|.|-
T Consensus       309 rRIHVD  314 (479)
T KOG0415|consen  309 RRIHVD  314 (479)
T ss_pred             ceEEee
Confidence            999885

>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]

Probab=97.69  E-value=2.5e-05  Score=90.03  Aligned_cols=68  Identities=18%  Similarity=0.371  Sum_probs=62.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      .+|+|-|||..+++++|..+|+.||.|+.|+.-.   ..+|.+||+|.|+.+|+.|+++|++..|.|+.|.
T Consensus        76 ~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~---~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   76 GTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP---NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc---ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            3999999999999999999999999999976433   3689999999999999999999999999999888

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.62  E-value=5.7e-05  Score=83.35  Aligned_cols=167  Identities=10%  Similarity=0.030  Sum_probs=118.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEe--cCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV--NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~--d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      ++|++++...+.+.++..++..+|.+....+..  +...++|++++.|...+.+..|+.......+.++.+.........
T Consensus        90 ~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~~~  169 (285)
T KOG4210|consen   90 TFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTRRG  169 (285)
T ss_pred             cccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccccc
Confidence            889999999999888888999998776654433  355789999999999999999997443334444444332211111


Q ss_pred             CcCCCCCCCCCCCCCCCc--CCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCC
Q 002280          630 SIMDNSGNPPFHGIPKHA--LPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSN  706 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~--~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~  706 (943)
                                  ..+...  ......+..++.+.|+....+.            ++|+.+|..+|.|..|.++.. ..+.
T Consensus       170 ------------~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~------------d~~~~~~~~~~~i~~~r~~~~~~s~~  225 (285)
T KOG4210|consen  170 ------------LRPKNKLSRLSSGPSDTIFFVGELDFSLTR------------DDLKEHFVSSGEITSVRLPTDEESGD  225 (285)
T ss_pred             ------------ccccchhcccccCccccceeecccccccch------------HHHhhhccCcCcceeeccCCCCCccc
Confidence                        001100  1112233445557777554343            678899999999999999876 5677


Q ss_pred             cceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          707 ISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       707 ~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      ..||+||.|.....+..|+.. ++..+++.++.+...
T Consensus       226 ~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  261 (285)
T KOG4210|consen  226 SKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEED  261 (285)
T ss_pred             hhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccC
Confidence            899999999999999999888 899999888777443

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=97.61  E-value=3e-05  Score=81.83  Aligned_cols=68  Identities=18%  Similarity=0.161  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHhc-CCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          675 LEVEEVLEDVRLECA-RFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       675 ~~~~ei~eDlre~fs-kFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      ..++++++||..+|+ +||+|+.++|..+-.....|-+||.|...++|++|++.|||++|+++.+....
T Consensus        76 ~~~defyEd~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~  144 (260)
T KOG2202|consen   76 RHEDEFYEDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAEL  144 (260)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeee
Confidence            347888899999999 99999999999887777788889999999999999999999999999988533

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=97.60  E-value=8.7e-05  Score=87.16  Aligned_cols=84  Identities=26%  Similarity=0.278  Sum_probs=66.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .+....|||+||++.++++.|...|..||.+.++....   |-....-.+.+.+|||-|-+..+|++|+. |+|+.+.+.
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            45567899999999999999999999999765542221   11222224567799999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .+++.+.+
T Consensus       248 e~K~gWgk  255 (877)
T KOG0151|consen  248 EMKLGWGK  255 (877)
T ss_pred             eeeecccc
Confidence            99888654

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

Probab=97.58  E-value=9.6e-05  Score=79.07  Aligned_cols=77  Identities=26%  Similarity=0.322  Sum_probs=63.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ....+|+|.|||+.+++++|+++|.+|+.   +..+    .|..-..|.+.|.|-|.|...++|..|++ |+|+.+.|++
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            34568999999999999999999999873   1111    22333457888999999999999999999 9999999999


Q ss_pred             ccccC
Q 002280          540 LKIKR  544 (943)
Q Consensus       540 LkV~r  544 (943)
                      |++..
T Consensus       154 mk~~~  158 (243)
T KOG0533|consen  154 MKIEI  158 (243)
T ss_pred             eeeEE
Confidence            88763

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

Probab=97.58  E-value=0.00016  Score=83.12  Aligned_cols=77  Identities=21%  Similarity=0.199  Sum_probs=59.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+++|+.+|.++|..||.+...   .  ..++. .-+....||||+|.+.+++..||..+-+.++|+.|
T Consensus       286 ~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~---~--I~vr~-~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl  359 (419)
T KOG0116|consen  286 ADGLGIFVKNLPPDATPAELEEVFKQFGPIKEG---G--IQVRS-PGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKL  359 (419)
T ss_pred             ecccceEeecCCCCCCHHHHHHHHhhccccccc---c--eEEec-cCCCcCceEEEEEeecchhhhhhhcCccccCCeeE
Confidence            334569999999999999999999999964331   0  11222 12344489999999999999999988888899888


Q ss_pred             ccc
Q 002280          541 KIK  543 (943)
Q Consensus       541 kV~  543 (943)
                      .|.
T Consensus       360 ~Ve  362 (419)
T KOG0116|consen  360 NVE  362 (419)
T ss_pred             EEE
Confidence            876

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=97.54  E-value=0.00013  Score=85.63  Aligned_cols=74  Identities=16%  Similarity=0.417  Sum_probs=68.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-----CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-----~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      .|||+||++.++++.|...|..||+|.+++|+...     ...+.|+||-|-+..+|+.|+..|+|+.+.+..+++.|+
T Consensus       176 Nlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg  254 (877)
T KOG0151|consen  176 NLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG  254 (877)
T ss_pred             ceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence            89999999999999999999999999999887652     234779999999999999999999999999999999987

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

Probab=97.45  E-value=0.00024  Score=81.81  Aligned_cols=75  Identities=21%  Similarity=0.387  Sum_probs=64.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .|||.|||.+++..+|.++|..||.|+...|..-.  +.+..||||+|.+...+..||.+- -..++++.|.|.--.+
T Consensus       290 ~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  290 GIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEeccc
Confidence            79999999999999999999999999998775542  334489999999999999999854 7788999999985433

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=97.40  E-value=0.00089  Score=61.97  Aligned_cols=74  Identities=16%  Similarity=0.293  Sum_probs=61.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc--CCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccC----CeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF--GPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG----GQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f--G~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~----gr~L~V~  623 (943)
                      +|+|.|||...+.++|.+++...  |...-+.|+.|  +..+.|||||-|.+++.|.+-...++|..+.    .+...|.
T Consensus         3 TvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~   82 (97)
T PF04059_consen    3 TVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEIS   82 (97)
T ss_pred             eEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEe
Confidence            79999999999999999988764  66666777777  4567999999999999999999999998874    4556666


Q ss_pred             Ec
Q 002280          624 QA  625 (943)
Q Consensus       624 ~A  625 (943)
                      +|
T Consensus        83 yA   84 (97)
T PF04059_consen   83 YA   84 (97)
T ss_pred             hh
Confidence            65

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=97.39  E-value=0.00024  Score=74.89  Aligned_cols=79  Identities=16%  Similarity=0.211  Sum_probs=68.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....-+||+|.|-..+|.+.|-..|..|-.      ....+.|.+..+|+++||+||-|.++.++..||. |||..++.+
T Consensus       187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfps------f~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsr  260 (290)
T KOG0226|consen  187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPS------FQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSR  260 (290)
T ss_pred             ccccceeecccccccccHHHHHHHHHhccc------hhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccc
Confidence            344578999999999999999999988643      2233467889999999999999999999999999 999999999


Q ss_pred             cccccC
Q 002280          539 ILKIKR  544 (943)
Q Consensus       539 ~LkV~r  544 (943)
                      +|+++.
T Consensus       261 piklRk  266 (290)
T KOG0226|consen  261 PIKLRK  266 (290)
T ss_pred             hhHhhh
Confidence            998874

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.22  E-value=0.00039  Score=74.49  Aligned_cols=77  Identities=12%  Similarity=0.235  Sum_probs=69.3

Q ss_pred             eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          549 VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       549 ~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      ....+||+|+.+.++.+++...|+.||.|..+.|+.+  .+..+||+||+|.+.+.+.+|+. |||..|.|+.|.|.+..
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            4458999999999999999999999999998888877  44579999999999999999999 99999999999998653

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=97.21  E-value=0.00071  Score=62.63  Aligned_cols=69  Identities=19%  Similarity=0.276  Sum_probs=54.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      .||+|.|||...|.++|.+++....  .|  ...-..+-++..++.+.|||||-|.+++.|..... ++|..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~--~g--~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~   71 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHF--KG--KYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP   71 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhc--cC--cceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence            4899999999999999999998753  11  11111233566778899999999999999999998 9987663

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>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=97.17  E-value=0.0014  Score=58.42  Aligned_cols=70  Identities=21%  Similarity=0.263  Sum_probs=47.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      .|||.|||.+.....|+.-+.+...-+|.       .|+.+    +.+.|+|-|.+.+.|.+|+. |+|-.+.|..|.|.
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            59999999999988877666654333332       44444    36889999999999999999 99999999999998


Q ss_pred             CC
Q 002280          544 RP  545 (943)
Q Consensus       544 rp  545 (943)
                      ..
T Consensus        73 ~~   74 (90)
T PF11608_consen   73 FS   74 (90)
T ss_dssp             SS
T ss_pred             Ec
Confidence            64

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.16  E-value=0.00027  Score=75.67  Aligned_cols=78  Identities=18%  Similarity=0.142  Sum_probs=65.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .-....+||||+.+.+|.++|...|+.||.+.++      ....+...+..+|||||+|.+.+.+..|+.|||..|.|+.
T Consensus        98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~------ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~  171 (231)
T KOG4209|consen   98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRV------TVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPA  171 (231)
T ss_pred             ccCCceEEEeccccccccchhhheeeccCCccce------eeeccccCCCcceeEEEecccHhhhHHHhhcCCccccccc
Confidence            4557899999999999999999999998864332      1334555677999999999999999999999999999999


Q ss_pred             cccc
Q 002280          540 LKIK  543 (943)
Q Consensus       540 LkV~  543 (943)
                      +.|.
T Consensus       172 i~vt  175 (231)
T KOG4209|consen  172 IEVT  175 (231)
T ss_pred             ceee
Confidence            9886

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=97.00  E-value=0.00013  Score=81.11  Aligned_cols=150  Identities=15%  Similarity=0.223  Sum_probs=109.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC--CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC-ccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL-KVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG--~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~-~~~gr~L~V~~A~~~  628 (943)
                      ++|++||.+.++..+|..+|...-  --..+ ++     ..||+||.+.+...|.+|++.|+|. .+.|+.+.|.+..+.
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~f-l~-----k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQF-LV-----KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcce-ee-----ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence            689999999999999999997641  11111 11     3689999999999999999999995 478999888876554


Q ss_pred             CCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCc
Q 002280          629 GSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNI  707 (943)
Q Consensus       629 ~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~  707 (943)
                      ..                       .++.+.|.|+..  .|       -.   +-+..+...||.|+.|..... +...+
T Consensus        77 kq-----------------------rsrk~Qirnipp--ql-------~w---evld~Ll~qyg~ve~~eqvnt~~etav  121 (584)
T KOG2193|consen   77 KQ-----------------------RSRKIQIRNIPP--QL-------QW---EVLDSLLAQYGTVENCEQVNTDSETAV  121 (584)
T ss_pred             HH-----------------------HhhhhhHhcCCH--HH-------HH---HHHHHHHhccCCHhHhhhhccchHHHH
Confidence            43                       244467777643  11       12   345566789999999987543 22221


Q ss_pred             ceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          708 STIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       708 ~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                         .-|+|...+.+..|+..|||..+-...+++.+--|
T Consensus       122 ---vnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPd  156 (584)
T KOG2193|consen  122 ---VNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPD  156 (584)
T ss_pred             ---HHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCch
Confidence               23799999999999999999999888777665433

>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=96.91  E-value=0.003  Score=56.29  Aligned_cols=67  Identities=10%  Similarity=0.200  Sum_probs=46.8

Q ss_pred             EEEEecCCCCCCHHH----HHHHHhhcC-CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKM----VMEIVCAFG-PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teed----L~e~Fs~fG-~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .|+|.|||...+...    |+.++..+| .|..|        ..+.|+|.|.+.+.|..|++.|+|..+-|+.|.|.+..
T Consensus         4 ~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~   75 (90)
T PF11608_consen    4 LLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP   75 (90)
T ss_dssp             EEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--------eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence            589999999988765    556666765 55444        35899999999999999999999999999999999763

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=96.90  E-value=0.0022  Score=74.02  Aligned_cols=83  Identities=6%  Similarity=-0.024  Sum_probs=68.2

Q ss_pred             CceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCcc
Q 002280          654 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDET  733 (943)
Q Consensus       654 ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~  733 (943)
                      -..|++|-|+.-      +.+.-+..+..-|..+|++||+|+.+.+|.++.|..+||.|++|.+..+|+.|++.|||..|
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            356788888754      23334667777889999999999999999998888999999999999999999999999998


Q ss_pred             C-CCceEEEE
Q 002280          734 N-EKGERLEE  742 (943)
Q Consensus       734 ~-~k~~~v~~  742 (943)
                      . ..|+.+..
T Consensus       131 dknHtf~v~~  140 (698)
T KOG2314|consen  131 DKNHTFFVRL  140 (698)
T ss_pred             cccceEEeeh
Confidence            7 44555443

>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=96.74  E-value=0.0045  Score=61.93  Aligned_cols=17  Identities=18%  Similarity=-0.031  Sum_probs=13.8

Q ss_pred             cCCCCCCCCCccccCCc
Q 002280          389 KSAKWDVAPVETYSVPS  405 (943)
Q Consensus       389 r~~~~di~P~~~~~v~~  405 (943)
                      -...|++||.+|+.+.+
T Consensus       115 I~~yv~VPp~gf~~~y~  131 (182)
T PF06495_consen  115 ITKYVDVPPPGFEYAYG  131 (182)
T ss_pred             eeeeccCCCcccccccC
Confidence            45789999999986665

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

>KOG2888 consensus Putative RNA binding protein [General function prediction only]

Probab=96.61  E-value=0.00085  Score=72.71  Aligned_cols=9  Identities=22%  Similarity=0.239  Sum_probs=4.0

Q ss_pred             CCCCccccc
Q 002280           84 KSPGVDVHT   92 (943)
Q Consensus        84 ~~~~~~~~~   92 (943)
                      +||+.-+-.
T Consensus       217 LFPRIPVPv  225 (453)
T KOG2888|consen  217 LFPRIPVPV  225 (453)
T ss_pred             cCCCCCchH
Confidence            445444433

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=96.59  E-value=0.0029  Score=70.10  Aligned_cols=84  Identities=19%  Similarity=0.148  Sum_probs=66.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccc---cCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHV---HGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i---~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ...-+|||-+||.++++++|.++|.+|+.+. -..-   +.+.+-.+..|+..|+-|.|.|.++..|+.|+. +++..|.
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ik-rnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQCGVIK-RNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhcceec-cCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            4456899999999999999999998887532 1111   112223455678899999999999999999999 9999999


Q ss_pred             cccccccCC
Q 002280          537 GSILKIKRP  545 (943)
Q Consensus       537 Gr~LkV~rp  545 (943)
                      |.+|+|...
T Consensus       143 gn~ikvs~a  151 (351)
T KOG1995|consen  143 GNTIKVSLA  151 (351)
T ss_pred             CCCchhhhh
Confidence            998888643

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=96.43  E-value=0.0025  Score=70.54  Aligned_cols=78  Identities=17%  Similarity=0.195  Sum_probs=68.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE--------EEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~--------v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      +|||.+||..+++.+|.++|.++|.|..        |.|.++  ++..+|-|.|.|.+...|+.|+.-+++..|.+.+|+
T Consensus        68 ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ik  147 (351)
T KOG1995|consen   68 TIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIK  147 (351)
T ss_pred             cceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCch
Confidence            8999999999999999999999998865        555555  456799999999999999999999999999999999


Q ss_pred             EEEcccCC
Q 002280          622 AVQAVLDG  629 (943)
Q Consensus       622 V~~A~~~~  629 (943)
                      |..|....
T Consensus       148 vs~a~~r~  155 (351)
T KOG1995|consen  148 VSLAERRT  155 (351)
T ss_pred             hhhhhhcc
Confidence            98775543

>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=96.37  E-value=0.0062  Score=57.40  Aligned_cols=57  Identities=16%  Similarity=0.299  Sum_probs=38.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG  612 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG  612 (943)
                      .|.|.+++..++-++|+++|+.||.|..|.+..    +...|||.|.+.+.|..|+..+.-
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~----G~~~g~VRf~~~~~A~~a~~~~~~   59 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSR----GDTEGYVRFKTPEAAQKALEKLKE   59 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS--EEEEE--T----T-SEEEEEESS---HHHHHHHHHH
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcCCcceEEecC----CCCEEEEEECCcchHHHHHHHHHh
Confidence            477888999999999999999999999888754    456899999999999999987753

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.79  E-value=0.019  Score=62.76  Aligned_cols=75  Identities=20%  Similarity=0.359  Sum_probs=60.5

Q ss_pred             EEEEecCCCCCCHHHH------HHHHhhcCCeeEEEEEecCC---CCCC--EEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISRTLSSKMV------MEIVCAFGPLKAYHFEVNED---HEEP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~~~teedL------~e~Fs~fG~I~~v~l~~d~~---~skG--~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      -+||-+||+.+-.|++      .++|.+||.|..|.|-+.+.   ...+  -+||+|.+.++|..||++.+|..+.|+.|
T Consensus       116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l  195 (480)
T COG5175         116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL  195 (480)
T ss_pred             eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence            6899999987776662      57999999999887754421   1122  34999999999999999999999999999


Q ss_pred             EEEEcc
Q 002280          621 TAVQAV  626 (943)
Q Consensus       621 ~V~~A~  626 (943)
                      ++.|..
T Consensus       196 katYGT  201 (480)
T COG5175         196 KATYGT  201 (480)
T ss_pred             eeecCc
Confidence            998753

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=95.47  E-value=0.033  Score=59.34  Aligned_cols=98  Identities=12%  Similarity=0.062  Sum_probs=78.5

Q ss_pred             hHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHH
Q 002280          601 LVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEV  680 (943)
Q Consensus       601 e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei  680 (943)
                      .-|..|-..|+|....|+.|.|.+|..                            ..|+|.|+..-...           
T Consensus         5 t~ae~ak~eLd~~~~~~~~lr~rfa~~----------------------------a~l~V~nl~~~~sn-----------   45 (275)
T KOG0115|consen    5 TLAEIAKRELDGRFPKGRSLRVRFAMH----------------------------AELYVVNLMQGASN-----------   45 (275)
T ss_pred             cHHHHHHHhcCCCCCCCCceEEEeecc----------------------------ceEEEEecchhhhh-----------
Confidence            346677788999999999999998833                            34677777443222           


Q ss_pred             HHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCce
Q 002280          681 LEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGE  738 (943)
Q Consensus       681 ~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~  738 (943)
                       +-+.+.|+.||.|+...+..+..+...+-++|+|...-.|.+|...++-.-|++.+.
T Consensus        46 -dll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~  102 (275)
T KOG0115|consen   46 -DLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTG  102 (275)
T ss_pred             -HHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCC
Confidence             346788999999999999999888888899999999999999999997666665443

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=95.33  E-value=0.025  Score=62.12  Aligned_cols=79  Identities=11%  Similarity=0.037  Sum_probs=62.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      +...-.+|||||-|++|.++|.+.+...|    +..+...+-..+...|+++|||+|...+.....+-|+ |-...|.|+
T Consensus        77 ~Grk~~~YvGNL~W~TTD~DL~~A~~S~G----~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ  152 (498)
T KOG4849|consen   77 EGRKYCCYVGNLLWYTTDADLLKALQSTG----LAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQ  152 (498)
T ss_pred             cCceEEEEecceeEEeccHHHHHHHHhhh----HHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCC
Confidence            34455799999999999999999996655    5555444344555668999999999999999999999 888888887


Q ss_pred             cccc
Q 002280          539 ILKI  542 (943)
Q Consensus       539 ~LkV  542 (943)
                      .-.|
T Consensus       153 ~P~V  156 (498)
T KOG4849|consen  153 SPTV  156 (498)
T ss_pred             CCee
Confidence            6444

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=95.21  E-value=0.049  Score=63.39  Aligned_cols=72  Identities=17%  Similarity=0.331  Sum_probs=58.5

Q ss_pred             EEEEecCCCCCCH------HHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEE
Q 002280          552 AIFIGGISRTLSS------KMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~te------edL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~  623 (943)
                      .|+|-|+|.--..      .-|..+|+++|+|..+.++.+ .+..+||.|++|.+..+|..|++.|||..|. +.++.|.
T Consensus        60 vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~  139 (698)
T KOG2314|consen   60 VVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR  139 (698)
T ss_pred             EEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence            7888888864332      346789999999999888766 4567999999999999999999999999985 4566665

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=94.81  E-value=0.052  Score=57.86  Aligned_cols=86  Identities=16%  Similarity=0.225  Sum_probs=72.7

Q ss_pred             HHHHHHH-ccCCccccccccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecCh
Q 002280          523 DASAALC-CDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQ  600 (943)
Q Consensus       523 dA~~Al~-LnG~~l~Gr~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~  600 (943)
                      -|..|-. |++....|+.|.|.....   ..|+|.||...++.+.+...|+.||+|....+..| .+...+-++|+|...
T Consensus         6 ~ae~ak~eLd~~~~~~~~lr~rfa~~---a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k   82 (275)
T KOG0115|consen    6 LAEIAKRELDGRFPKGRSLRVRFAMH---AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKK   82 (275)
T ss_pred             HHHHHHHhcCCCCCCCCceEEEeecc---ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcc
Confidence            3556666 899999999999987655   38999999999999999999999999988555444 567788999999999


Q ss_pred             hHHHHHHHHhC
Q 002280          601 LVTPKAIAGLN  611 (943)
Q Consensus       601 e~A~kAl~~Ln  611 (943)
                      -.|.+|+....
T Consensus        83 ~~a~~a~rr~~   93 (275)
T KOG0115|consen   83 PNARKAARRCR   93 (275)
T ss_pred             hhHHHHHHHhc
Confidence            99999998764

>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=94.59  E-value=0.056  Score=50.99  Aligned_cols=53  Identities=25%  Similarity=0.231  Sum_probs=34.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC  529 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~  529 (943)
                      .|+|.+++..++-++|+++|++|+            .|.-+........|||-|.+++.|..|+.
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g------------~V~yVD~~~G~~~g~VRf~~~~~A~~a~~   55 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFG------------EVAYVDFSRGDTEGYVRFKTPEAAQKALE   55 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS--------------EEEEE--TT-SEEEEEESS---HHHHHH
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcC------------CcceEEecCCCCEEEEEECCcchHHHHHH
Confidence            588999999999999999998877            34445555556679999999999999998

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=94.39  E-value=0.044  Score=58.39  Aligned_cols=68  Identities=16%  Similarity=0.373  Sum_probs=58.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC----------CCCC----EEEEeecChhHHHHHHHHhCCCccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED----------HEEP----CAFIEYVDQLVTPKAIAGLNGLKVGG  617 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~----------~skG----~aFVeF~~~e~A~kAl~~LnG~~~~g  617 (943)
                      .||+++||+.+...-|+++|+.||.|-.|.|.....          .+.+    -|+|+|.+...|......|||..|+|
T Consensus        76 VvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Igg  155 (278)
T KOG3152|consen   76 VVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGG  155 (278)
T ss_pred             EEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCC
Confidence            899999999999999999999999999999876522          1222    36799999999999999999999998


Q ss_pred             eE
Q 002280          618 QV  619 (943)
Q Consensus       618 r~  619 (943)
                      +.
T Consensus       156 kk  157 (278)
T KOG3152|consen  156 KK  157 (278)
T ss_pred             CC
Confidence            75

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=94.25  E-value=0.094  Score=43.18  Aligned_cols=52  Identities=19%  Similarity=0.366  Sum_probs=41.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHH
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAAL  528 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al  528 (943)
                      +.|-|.|.|+...+.-| ..|.+||            .|.++.......++||.|.+..+|++||
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            46888999888776554 4887888            5566666667889999999999999996

>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]

Probab=94.24  E-value=0.12  Score=60.27  Aligned_cols=10  Identities=20%  Similarity=0.541  Sum_probs=4.6

Q ss_pred             HHHHHhhcCC
Q 002280          567 VMEIVCAFGP  576 (943)
Q Consensus       567 L~e~Fs~fG~  576 (943)
                      |++++.+||.
T Consensus       520 LRevLKKyG~  529 (752)
T KOG0670|consen  520 LREVLKKYGR  529 (752)
T ss_pred             HHHHHHHhCc
Confidence            3444445543

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=94.18  E-value=0.085  Score=43.42  Aligned_cols=39  Identities=15%  Similarity=0.125  Sum_probs=32.8

Q ss_pred             HHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHH
Q 002280          682 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVG  725 (943)
Q Consensus       682 eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai  725 (943)
                      +.|...|..||+|+.+.++.     ..-+.||+|.+..+|++|+
T Consensus        15 ~~vl~~F~~fGeI~~~~~~~-----~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen   15 EEVLEHFASFGEIVDIYVPE-----STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             HHHHHHHHhcCCEEEEEcCC-----CCcEEEEEECCHHHHHhhC
Confidence            56788999999999999983     2336799999999999984

>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=94.08  E-value=0.19  Score=46.93  Aligned_cols=72  Identities=17%  Similarity=0.225  Sum_probs=49.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEE-EEec--------CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE-EE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYH-FEVN--------EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-LT  621 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~-l~~d--------~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~-L~  621 (943)
                      .|.|-+.|+. ....|.+.|++||.|.... +.++        ...+..+..|+|.+..+|.+||. -||..|+|.. +-
T Consensus         8 wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvG   85 (100)
T PF05172_consen    8 WVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVG   85 (100)
T ss_dssp             EEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEE
T ss_pred             EEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEE
Confidence            4677788887 5567889999999987653 1111        01246799999999999999997 8999998864 45


Q ss_pred             EEEc
Q 002280          622 AVQA  625 (943)
Q Consensus       622 V~~A  625 (943)
                      |.++
T Consensus        86 V~~~   89 (100)
T PF05172_consen   86 VKPC   89 (100)
T ss_dssp             EEE-
T ss_pred             EEEc
Confidence            6655

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.

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=93.77  E-value=0.059  Score=61.05  Aligned_cols=75  Identities=17%  Similarity=0.174  Sum_probs=55.2

Q ss_pred             CCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC---CC---CCcc--------eeEEEEeCCH
Q 002280          653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY---GD---SNIS--------TIQACEGNEN  718 (943)
Q Consensus       653 ~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~---~~---g~~~--------G~~FVeF~~~  718 (943)
                      -++++|++.||...--            .+-|..+|+.||.|.+|.|.++   +.   ++.+        -.|+|+|...
T Consensus       229 l~srtivaenLP~Dh~------------~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~  296 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHS------------YENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEV  296 (484)
T ss_pred             cccceEEEecCCcchH------------HHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhh
Confidence            4789999999854222            2678889999999999999987   21   2222        2589999999


Q ss_pred             HHHHHHHHHhCCCccCCCceE
Q 002280          719 TASAGVGQNLTNDETNEKGER  739 (943)
Q Consensus       719 e~A~~Ai~~LnGr~~~~k~~~  739 (943)
                      +.|.+|...||-..-.-..++
T Consensus       297 ~~A~KA~e~~~~e~~wr~glk  317 (484)
T KOG1855|consen  297 EAARKARELLNPEQNWRMGLK  317 (484)
T ss_pred             HHHHHHHHhhchhhhhhhcch
Confidence            999999999965544333333

>KOG1847 consensus mRNA splicing factor [RNA processing and modification]

Probab=93.69  E-value=0.07  Score=62.85  Aligned_cols=21  Identities=43%  Similarity=0.599  Sum_probs=9.8

Q ss_pred             CCCcccccCchhhhhhhhccC
Q 002280          219 KDRHADKSGEKSERESKRKHR  239 (943)
Q Consensus       219 ~dr~r~r~r~~~~~~~~~~~r  239 (943)
                      .||+.+.+..-+..+.++..+
T Consensus       705 ~dr~ssksk~ep~ee~k~~~~  725 (878)
T KOG1847|consen  705 KDRHSSKSKHEPSEEDKYHSR  725 (878)
T ss_pred             CCcccccccCCChhhhhhhhh
Confidence            344444444444444444444

>KOG1847 consensus mRNA splicing factor [RNA processing and modification]

Probab=93.57  E-value=0.083  Score=62.23  Aligned_cols=10  Identities=30%  Similarity=0.222  Sum_probs=5.9

Q ss_pred             hhhhhhhhhh
Q 002280          125 DLETKLKEDY  134 (943)
Q Consensus       125 ~~~~~~~~~~  134 (943)
                      .++.||-.|.
T Consensus       635 va~eKLaqe~  644 (878)
T KOG1847|consen  635 VAEEKLAQEG  644 (878)
T ss_pred             HHHHHHHhhh
Confidence            4566666554

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=93.46  E-value=0.24  Score=49.12  Aligned_cols=57  Identities=18%  Similarity=0.342  Sum_probs=44.9

Q ss_pred             HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          565 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       565 edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|.+.|..||.+.-++++-      +.-+|+|.+-.+|.+|+. |+|.+++|+.|.|....|.
T Consensus        51 ~~ll~~~~~~GevvLvRfv~------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd  107 (146)
T PF08952_consen   51 DELLQKFAQYGEVVLVRFVG------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD  107 (146)
T ss_dssp             HHHHHHHHCCS-ECEEEEET------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred             HHHHHHHHhCCceEEEEEeC------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence            36778888999887776643      578999999999999997 9999999999999876553

; PDB: 1UFW_A 2DNR_A.

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=93.37  E-value=0.033  Score=59.26  Aligned_cols=79  Identities=14%  Similarity=0.046  Sum_probs=54.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCccee--eeeeecCCC--e--eeEEeCCHHHHHHHHH-ccCCc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI--GCVIQREKG--Q--AFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~--~~~~~~skG--y--AFVeF~s~edA~~Al~-LnG~~  534 (943)
                      ..-.||+++||+.+...-|+++|+.||.+--+...+......  ...-+.+.+  |  |.|||.+...|..+.. |||..
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            345799999999999999999999999632221111110000  001122222  2  8999999999999777 99999


Q ss_pred             cccccc
Q 002280          535 FSGSIL  540 (943)
Q Consensus       535 l~Gr~L  540 (943)
                      |+|+.-
T Consensus       153 Iggkk~  158 (278)
T KOG3152|consen  153 IGGKKK  158 (278)
T ss_pred             cCCCCC
Confidence            999764

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=93.34  E-value=0.065  Score=58.96  Aligned_cols=73  Identities=12%  Similarity=0.185  Sum_probs=60.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCC--eeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGP--LKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~--I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      ++|||||-+.+|++||.+.+...|.  +..++++-+  .+.++|||+|...+.....+.+..|-...|.|+.-.|..
T Consensus        82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~  158 (498)
T KOG4849|consen   82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS  158 (498)
T ss_pred             EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence            8999999999999999999988773  444555444  468899999999999999999999988889888766653

>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=93.15  E-value=0.2  Score=46.89  Aligned_cols=78  Identities=19%  Similarity=0.147  Sum_probs=47.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCC-cceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGS-LPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~-~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..-|.|-+.|+. .-..|...|++||.+.....+... .-+..-..........|.|.++.+|.+||..||..|.|.-|-
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            456888899988 566788899999854321100000 000000123345678999999999999999999999886653

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.93  E-value=0.16  Score=55.83  Aligned_cols=59  Identities=12%  Similarity=-0.001  Sum_probs=47.4

Q ss_pred             HHHhcCCCCeEEEEEecCCCCCcc--e-e-EEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          685 RLECARFGSVKSVNVVKYGDSNIS--T-I-QACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       685 re~fskFG~V~~V~I~r~~~g~~~--G-~-~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      .+.|.+||+|..|.|-+.......  + + +||+|.+.++|..||+++.|....++.++....
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            467999999999999876322211  1 2 599999999999999999999999999886554

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=92.87  E-value=0.081  Score=59.95  Aligned_cols=63  Identities=21%  Similarity=0.236  Sum_probs=53.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec---CC-----C-------CCCEEEEeecChhHHHHHHHHhCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---ED-----H-------EEPCAFIEYVDQLVTPKAIAGLNGL  613 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d---~~-----~-------skG~aFVeF~~~e~A~kAl~~LnG~  613 (943)
                      .+|.+-|||.+-.-+.|.+||+.+|.|+.|+|...   ..     .       .+-+|||+|...+.|.+|...|+..
T Consensus       232 rtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e  309 (484)
T KOG1855|consen  232 RTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE  309 (484)
T ss_pred             ceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence            39999999999999999999999999999999765   11     1       1458999999999999999988643

>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]

Probab=92.40  E-value=0.15  Score=59.60  Aligned_cols=12  Identities=17%  Similarity=0.285  Sum_probs=6.4

Q ss_pred             HHHHhcCCCCeE
Q 002280          684 VRLECARFGSVK  695 (943)
Q Consensus       684 lre~fskFG~V~  695 (943)
                      |+++..+||.=+
T Consensus       520 LRevLKKyG~nv  531 (752)
T KOG0670|consen  520 LREVLKKYGRNV  531 (752)
T ss_pred             HHHHHHHhCccc
Confidence            455556666433

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=92.11  E-value=0.19  Score=60.01  Aligned_cols=69  Identities=16%  Similarity=0.060  Sum_probs=54.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      -++.-++||||+-..+..+-++.+++.||.+..+            ..   -.|||++|..+.-+-.|+. ++-..+.|+
T Consensus        37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~------------kr---~~fgf~~f~~~~~~~ra~r~~t~~~~~~~  101 (668)
T KOG2253|consen   37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSW------------KR---DKFGFCEFLKHIGDLRASRLLTELNIDDQ  101 (668)
T ss_pred             CCCCceeEecchhhhhhHHHHHHHHhhCCcchhh------------hh---hhhcccchhhHHHHHHHHHHhcccCCCcc
Confidence            3456699999999999999999999888743221            11   1199999999999999999 777888888


Q ss_pred             ccccc
Q 002280          539 ILKIK  543 (943)
Q Consensus       539 ~LkV~  543 (943)
                      .+.+.
T Consensus       102 kl~~~  106 (668)
T KOG2253|consen  102 KLIEN  106 (668)
T ss_pred             hhhcc
Confidence            77655

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=91.49  E-value=0.27  Score=57.90  Aligned_cols=65  Identities=20%  Similarity=0.265  Sum_probs=54.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .+.++.|||.||---+|.-+|+++|..-|   |        .|...++.+-+..|||.|.+.++|..-.. |+|+.+
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtg---g--------~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~W  506 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTG---G--------NVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQW  506 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhcc---C--------chHHHHHHHhhcceeEecccHHHHHHHHHHHhcccc
Confidence            45678999999999999999999996433   1        45556777789999999999999999998 998654

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=90.94  E-value=0.16  Score=59.68  Aligned_cols=70  Identities=11%  Similarity=0.199  Sum_probs=56.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhh-cCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc---CCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCA-FGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~-fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~---~gr~L~V~~A  625 (943)
                      .|+|.||--.+|.-+|+.++.. .|.|..++|.+    -+..|||.|.+.++|.....+|||..+   +++-|.|.|+
T Consensus       446 vlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk----IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~  519 (718)
T KOG2416|consen  446 VLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK----IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV  519 (718)
T ss_pred             eEeeecccccchHHHHHHHHhhccCchHHHHHHH----hhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence            8999999999999999999995 56666663322    367899999999999999999999775   4556666654

>PF08648 DUF1777: Protein of unknown function (DUF1777); InterPro: IPR013957 This entry shows eukaryotic proteins of unknown function

Probab=88.77  E-value=0.55  Score=48.53  Aligned_cols=8  Identities=13%  Similarity=0.484  Sum_probs=3.5

Q ss_pred             HHHHHHHh
Q 002280          479 ALMEFLNN  486 (943)
Q Consensus       479 dL~elF~~  486 (943)
                      +.++|++-
T Consensus       161 ~yRQYMNR  168 (180)
T PF08648_consen  161 KYRQYMNR  168 (180)
T ss_pred             HHHHHHhh
Confidence            34444444

Some of the proteins are putative nucleic acid binding proteins.

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=88.58  E-value=1.9  Score=36.83  Aligned_cols=52  Identities=19%  Similarity=0.385  Sum_probs=42.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc----CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF----GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL  610 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f----G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L  610 (943)
                      +|+|.|+.. ++.++|+.+|..|    ++ ..|.++.|     ..|-|.|.+.+.|.+||.+|
T Consensus         7 avhirGvd~-lsT~dI~~y~~~y~~~~~~-~~IEWIdD-----tScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    7 AVHIRGVDE-LSTDDIKAYFSEYFDEEGP-FRIEWIDD-----TSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eEEEEcCCC-CCHHHHHHHHHHhcccCCC-ceEEEecC-----CcEEEEECCHHHHHHHHHcC
Confidence            789999854 7888999999999    54 46777766     36889999999999999865

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=87.42  E-value=2.7  Score=41.92  Aligned_cols=61  Identities=13%  Similarity=0.166  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          677 VEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       677 ~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      -..+..+|-+.|..||+|.-|++...   .    -+|+|.+-+.|.+| ..|+|.+++++++++.....
T Consensus        46 dd~l~~~ll~~~~~~GevvLvRfv~~---~----mwVTF~dg~sALaa-ls~dg~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   46 DDNLMDELLQKFAQYGEVVLVRFVGD---T----MWVTFRDGQSALAA-LSLDGIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             -HHHHHHHHHHHHCCS-ECEEEEETT---C----EEEEESSCHHHHHH-HHGCCSEETTEEEEEEE---
T ss_pred             CHHHHHHHHHHHHhCCceEEEEEeCC---e----EEEEECccHHHHHH-HccCCcEECCEEEEEEeCCc
Confidence            34566778889999999988877663   2    37999999999777 56899999999999977653

; PDB: 1UFW_A 2DNR_A.

>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=87.19  E-value=2.8  Score=39.99  Aligned_cols=65  Identities=11%  Similarity=0.099  Sum_probs=51.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF-GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f-G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                      .+.+...|..++.++|..+.+.+ ..|..++|+++...++-.+.+.|.+...|..-...+||..|.
T Consensus        15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn   80 (110)
T PF07576_consen   15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFN   80 (110)
T ss_pred             EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence            34445556666677777777766 456778999987778889999999999999999999999875

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=87.07  E-value=2.2  Score=38.50  Aligned_cols=53  Identities=9%  Similarity=0.253  Sum_probs=40.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      ..+|+ +|..+...||.++|+.||.|. |.++.     -..|||...+.+.|..|+..+.
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~-----dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIN-----DTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCEE-EEEEC-----TTEEEEEECCCHHHHHHHHHHT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcEE-EEEEc-----CCcEEEEeecHHHHHHHHHHhc
Confidence            44555 999999999999999999984 44444     4689999999999999998875

; 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.

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=85.60  E-value=2  Score=42.36  Aligned_cols=67  Identities=16%  Similarity=0.347  Sum_probs=50.5

Q ss_pred             EEEEecCCCCC----CHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          552 AIFIGGISRTL----SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~----teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      +|.|.=|..++    +...|...++.||+|.+|.+.     ++-.|.|.|.+..+|-+|+.+++. ...|..+.+.+
T Consensus        88 TIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsW  158 (166)
T PF15023_consen   88 TIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----GRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSW  158 (166)
T ss_pred             eEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----CCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeec
Confidence            77776554443    334566778899999998753     566899999999999999999876 45666666654

>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=82.14  E-value=3.8  Score=42.63  Aligned_cols=61  Identities=11%  Similarity=0.064  Sum_probs=46.4

Q ss_pred             CHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC--CCccCCeEEEEEEccc
Q 002280          563 SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQAVL  627 (943)
Q Consensus       563 teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln--G~~~~gr~L~V~~A~~  627 (943)
                      ..+.|+++|..|+.+..+.+++    +-+-+.|.|.+.+.|..|...|+  +..|.|..|+|.++.+
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~----sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~   70 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLK----SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP   70 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEET----TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred             hHHHHHHHHHhcCCceEEEEcC----CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence            3478999999999998887665    46778999999999999999999  9999999999998844

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.

>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]

Probab=81.97  E-value=0.43  Score=55.38  Aligned_cols=20  Identities=10%  Similarity=-0.066  Sum_probs=11.1

Q ss_pred             cCCCCCCCHHHHHHHHHhhh
Q 002280          469 ENLPLSASEKALMEFLNNFL  488 (943)
Q Consensus       469 gNLP~~vTEedL~elF~~~G  488 (943)
                      ||--+.+|...+...|-+|.
T Consensus       555 G~~r~klt~~~~lk~rmq~~  574 (653)
T KOG2548|consen  555 GNSRPKLTFFECLKSRMQFF  574 (653)
T ss_pred             CCCCCcccHHHHHHHHHHHH
Confidence            55556667655555554443

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=81.57  E-value=3.4  Score=47.67  Aligned_cols=68  Identities=12%  Similarity=0.182  Sum_probs=60.5

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCC
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAF-GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG  617 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~f-G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g  617 (943)
                      ...|+|-.+|..++..||..|+..| -.|..|+|+++...++-.++|.|.+.++|..-...+||..|..
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            3489999999999999999999886 4688899999877788899999999999999999999998853

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	943
2g4b_A	172	Structure Of U2af65 Variant With Polyuridine Tract		4e-23
3vaf_A	174	Structure Of U2af65 Variant With Bru3 Dna Length =		4e-23
2yh0_A	198	Solution Structure Of The Closed Conformation Of Hu		2e-20
1u2f_A	90	Solution Structure Of The First Rna-Binding Domain		9e-10
2hzc_A	87	Crystal Structure Of The N-terminal Rrm Of The U2af		3e-09
2u2f_A	85	Solution Structure Of The Second Rna-Binding Domain		1e-07

>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract Length = 172

Iteration: 1
 Score =  107 bits (266), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 61/168 (36%), Positives = 98/168 (58%), Gaps = 7/168 (4%)
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 ASAALCCDGCSFSGSILKIKRPKEFVEV----AIFIGGISRTLSSKMVMEIVCAFGPLKA 579
            + A+  DG  F G  LKI+RP ++  +     +FIGG+   L+   V E++ +FGPLKA
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 123
Query: 580 YHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA 625
           ++   +      +  AF EYVD  VT +AIAGLNG+++G + L   +A
Sbjct: 124 FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171

>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna Length = 174

Iteration: 1
 Score =  107 bits (266), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 61/168 (36%), Positives = 98/168 (58%), Gaps = 7/168 (4%)
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 ASAALCCDGCSFSGSILKIKRPKEFVEV----AIFIGGISRTLSSKMVMEIVCAFGPLKA 579
            + A+  DG  F G  LKI+RP ++  +     +FIGG+   L+   V E++ +FGPLKA
Sbjct: 66  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 125
Query: 580 YHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA 625
           ++   +      +  AF EYVD  VT +AIAGLNG+++G + L   +A
Sbjct: 126 FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 173

>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human U2af65 Tandem Rrm1 And Rrm2 Domains Length = 198

Iteration: 1
 Score = 97.8 bits (242), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 61/188 (32%), Positives = 98/188 (52%), Gaps = 27/188 (14%)
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 ASAALCCDGCSFSGSILKIKRPKEFVEV------------------------AIFIGGIS 559
            + A+  DG  F G  LKI+RP ++  +                         +FIGG+ 
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLP 123
Query: 560 RTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG 617
             L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIAGLNG+++G 
Sbjct: 124 NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD 183
Query: 618 QVLTAVQA 625
           + L   +A
Sbjct: 184 KKLLVQRA 191

>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 = 9e-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 = 3e-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 = 55.8 bits (133), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 31/75 (41%), Positives = 47/75 (62%), Gaps = 2/75 (2%)
Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHF--EVNEDHEEPCAFIEYVDQLVTPKAIAGL 610
           +FIGG+   L+   V E++ +FGPLKA++   +      +  AF EYVD  VT +AIAGL
Sbjct: 4   LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 611 NGLKVGGQVLTAVQA 625
           NG+++G + L   +A
Sbjct: 64  NGMQLGDKKLLVQRA 78

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	943
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	2e-35
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-31
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-05
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	3e-20
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-13
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-09
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	4e-09
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	5e-08
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
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-08
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	3e-08
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	9e-08
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
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	4e-07
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	5e-07
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	9e-07
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	1e-06
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
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	2e-06
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-06
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-06
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	2e-06
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	3e-06
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	1e-04
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	6e-06
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-05
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	7e-06
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	9e-06
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	9e-06
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	9e-06
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	9e-06
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	1e-05
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	4e-05
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-04
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-05
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	4e-05
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	5e-05
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	5e-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
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	8e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	3e-04
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	8e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	8e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	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
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	2e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	9e-04
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	2e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-04
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	2e-04
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	3e-04
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	3e-04
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	3e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	5e-04
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	5e-04
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	5e-04
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	6e-04
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	6e-04
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	6e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	7e-04
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	7e-04
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	8e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	8e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	9e-04

>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 =  131 bits (332), Expect = 2e-35
 Identities = 61/168 (36%), Positives = 97/168 (57%), Gaps = 7/168 (4%)

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 ASAALCCDGCSFSGSILKIKRPKEFVEVA----IFIGGISRTLSSKMVMEIVCAFGPLKA 579
            + A+  DG  F G  LKI+RP ++  +     +FIGG+   L+   V E++ +FGPLKA
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 123

Query: 580 YHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA 625
           ++   +         AF EYVD  VT +AIAGLNG+++G + L   +A
Sbjct: 124 FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171

>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 =  121 bits (306), Expect = 1e-31
 Identities = 60/186 (32%), Positives = 95/186 (51%), Gaps = 27/186 (14%)

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 EDASAALCCDGCSFSGSILKIKRPKEFVEVA------------------------IFIGG 557
           ++ + A+  DG  F G  LKI+RP ++  +                         +FIGG
Sbjct: 62  DETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGG 121

Query: 558 ISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKV 615
           +   L+   V E++ +FGPLKA++   +         AF EYVD  VT +AIAGLNG+++
Sbjct: 122 LPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQL 181

Query: 616 GGQVLT 621
           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 = 46.2 bits (110), Expect = 1e-05
 Identities = 30/163 (18%), Positives = 59/163 (36%), Gaps = 21/163 (12%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFE-------VNEDHEEPCAFIEYVDQLVTPK 605
           +++G I   ++ + +M+   A   L             V  + ++  AF+E+     T +
Sbjct: 7   LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 66

Query: 606 AIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFN 665
           A+A  +G+   GQ L            D    P     P   +P +           +F 
Sbjct: 67  AMA-FDGIIFQGQSLKI------RRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLF- 118

Query: 666 PEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS 708
                 L    + +  + V+     FG +K+ N+VK   + +S
Sbjct: 119 ---IGGLPN-YLND--DQVKELLTSFGPLKAFNLVKDSATGLS 155

>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

>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 = 71.2 bits (175), Expect = 1e-13
 Identities = 32/170 (18%), Positives = 67/170 (39%), Gaps = 18/170 (10%)

Query: 455 QLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQA 514
              +  R  R++ +  LP   + + + + L+++     +++         C + + KG A
Sbjct: 14  HTERQFRNRRKILIRGLPGDVTNQEVHDLLSDY----ELKY---------CFVDKYKGTA 60

Query: 515 FVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCA 573
           FV  L  E A AA+            L ++         + +  +  +L+ +   E+V  
Sbjct: 61  FVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTD--ALLCVANLPPSLTQQQFEELVRP 118

Query: 574 FGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVLT 621
           FG L+      +E   +     F EY+ +    +A + L G  +G + L 
Sbjct: 119 FGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLY 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 = 52.3 bits (126), Expect = 2e-07
 Identities = 31/176 (17%), Positives = 54/176 (30%), Gaps = 28/176 (15%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE------KGQA 514
                LCV NLP S +++   E +  F          G      C +         KG  
Sbjct: 93  PTDALLCVANLPPSLTQQQFEELVRPF----------G--SLERCFLVYSERTGQSKGYG 140

Query: 515 FVEFLTAEDASAALC-CDGCSFSGSILKIKR-------PKEFVEVAIFIGGISRTLS-SK 565
           F E++  + A+ A     G       L +         P       + +  +    +   
Sbjct: 141 FAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVD 200

Query: 566 MVMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL 620
            +   + A            +D   +  A +EY    +  +A    +GL +GG  L
Sbjct: 201 ALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHL 256

>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 = 66.0 bits (160), Expect = 4e-11
 Identities = 77/498 (15%), Positives = 144/498 (28%), Gaps = 160/498 (32%)

Query: 513 QAFVEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISR---TLSSKMVME 569
            AFV+    +D       D      SIL  +     +     + G  R   TL SK   E
Sbjct: 27  DAFVDNFDCKDVQ-----D---MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ-EE 77

Query: 570 IVCAF--GPLKA-YHFEVNEDHEEP-------CAFIEYVDQLVTPKAIAGLNGLKVGGQV 619
           +V  F    L+  Y F ++    E          +IE  D+L                  
Sbjct: 78  MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL------------------ 119

Query: 620 LTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVF---NPE--------- 667
                          + N  F    K+ +    +    LKL+       P          
Sbjct: 120 --------------YNDNQVF---AKYNVS---RLQPYLKLRQALLELRPAKNVLIDGVL 159

Query: 668 GF--SSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVG 725
           G   + +      +V    +++C     +  +N+      N ++ +            + 
Sbjct: 160 GSGKTWV----ALDVCLSYKVQCKMDFKIFWLNL-----KNCNSPETVLEMLQKLLYQID 210

Query: 726 QNLTN---------DETNEKGERLEEVTDHKSIKNNELEILND--SKEVMEAGEVN---- 770
            N T+            +     L  +   K  +N  L +L +  + +   A  ++    
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-LLVLLNVQNAKAWNAFNLSCKIL 269

Query: 771 ------NVKDNRPASGT---------MG---DEPSQLCELDTDMAVEYQARDSTSEIVSQ 812
                  V D   A+ T         M    DE   L     D   +    D   E++  
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ----DLPREVL-T 324

Query: 813 GVPTQVN----TLKDSPCAHD-------DKVTCNIQ--LEHMSEENKSSAKEDLNL--EE 857
             P +++    +++D     D       DK+T  I+  L  +         + L++    
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384

Query: 858 VN----------GNSEAFTGAS--NEMGMQSSAVENGDNENQDPNQGHIFEPGCVFVEYM 905
            +           +          N++  + S VE      + P +  I  P      Y+
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKL-HKYSLVE------KQPKESTISIPSI----YL 433

Query: 906 RAEASCMAAHSLHRRLFD 923
             +      ++LHR + D
Sbjct: 434 ELKVKLENEYALHRSIVD 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 = 49.9 bits (118), Expect = 4e-06
 Identities = 89/697 (12%), Positives = 177/697 (25%), Gaps = 217/697 (31%)

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--AKWDVAPVETYSVPSNVHTSNQAASSNAHEMVSSDPVTS-----TTQKPLA 436
              E KS   K+         +P  V T+N    S   E +     T           L 
Sbjct: 301 --DEVKSLLLKY--LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356

Query: 437 GISVSASLAKLN------------VSMDSVQLTQSNRPMRRLCV--ENLPLSASEKALME 482
            I + +SL  L             V   S  +     P   L +   ++  S     + +
Sbjct: 357 TI-IESSLNVLEPAEYRKMFDRLSVFPPSAHI-----PTILLSLIWFDVIKSDVMVVVNK 410

Query: 483 FLNNFLL----SSGVQHVHGSLPCIGCVIQREKGQAFVE------FLTAEDASAALCCDG 532
                L+          +         +    K +   E       +   +       D 
Sbjct: 411 LHKYSLVEKQPKESTISIPS-------IYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463

Query: 533 CSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC 592
                       P         IG                       +H +  E  E   
Sbjct: 464 LI---------PPYLDQYFYSHIG-----------------------HHLKNIEHPERMT 491

Query: 593 AFIE-YVD-QLVTPKAIAGLNGLKVGGQVLTAVQAVLD---------GSIMDNSGNPPFH 641
            F   ++D + +  K       ++       A  ++L+           I DN   P + 
Sbjct: 492 LFRMVFLDFRFLEQK-------IRHDSTAWNASGSILNTLQQLKFYKPYICDND--PKYE 542

Query: 642 G--------IPKHALPLLKKP-TEVLKLKNVFNPEGF 669
                    +PK    L+    T++L++  +   +  
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRIA-LMAEDEA 578

>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 = 56.5 bits (137), Expect = 3e-09
 Identities = 26/175 (14%), Positives = 57/175 (32%), Gaps = 34/175 (19%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-----QREKGQAF 515
                L + NL  + S   L   ++                     +        +   +
Sbjct: 11  TTPFNLFIGNLNPNKSVAELKVAISEL----------F--AKNDLAVVDVRTGTNRKFGY 58

Query: 516 VEFLTAEDASAALCCDGCSFSGSILKIKRPKEFVEVA------IFIGGISRTLSSKMVME 569
           V+F +AED   AL   G    G+ +K+++PK            +    +S  ++   + E
Sbjct: 59  VDFESAEDLEKALELTGLKVFGNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKE 118

Query: 570 IVCAFGPLKAYHFEVNEDHEEP----CAFIEYVDQLVTPKAIAGLNGLKVGGQVL 620
           +            E+    ++      A+IE+  +    K +    G ++ G+ +
Sbjct: 119 VFEDAL-------EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166

>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: 893 HIFEP---GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRARF 941
           ++ +    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 = 5e-08
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 654 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNV 699
            T+  +L N+FNP+  +        E+ +DV  EC + G V  + V
Sbjct: 6   ATQCFQLSNMFNPQ--TEEEVGWDTEIKDDVIEECNKHGGVIHIYV 49

>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: 653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD 704
            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: 898 GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 940
           G +FVE+        A   L  R F +R+V  +Y   + Y  R
Sbjct: 60  GKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR 102

>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 = 55.8 bits (135), Expect = 2e-08
 Identities = 24/161 (14%), Positives = 57/161 (35%), Gaps = 21/161 (13%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ----AFVEFLTAED 523
           V+NLP S ++  + ++  +           G  P I   +     +    A +EF   + 
Sbjct: 46  VKNLPKSYNQNKVYKYFKHC----------G--PIIHVDVADSLKKNFRFARIEFARYDG 93

Query: 524 ASAALCCDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLK-AYHF 582
           A AA+         + + +       E  +++     + + + + +++     +  +   
Sbjct: 94  ALAAITKTHKVVGQNEIIVSH---LTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRL 150

Query: 583 EVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGGQVLTA 622
                +     A+I+   +      +  LNGLK+ G  L  
Sbjct: 151 PSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVT 191

>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 = 42.3 bits (100), Expect = 4e-04
 Identities = 35/201 (17%), Positives = 78/201 (38%), Gaps = 27/201 (13%)

Query: 439 SVSASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG 498
              A++ K +  +   ++  S+     L + N P S +++ + + L +      V  +  
Sbjct: 93  GALAAITKTHKVVGQNEIIVSHLTECTLWMTNFPPSYTQRNIRDLLQDI----NVVALSI 148

Query: 499 SLPCIGCVIQREKGQAFVEFLTAEDASAAL-CCDGCSFSGSIL--KIKRPKEFVE----- 550
            LP +       +  A+++  + EDA   +   +G    G  L  K+  P E  +     
Sbjct: 149 RLPSLR--FNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSA 206

Query: 551 ----VAIFIGGISRTLSS-KMVMEIVCAFGPLKAYHFEVNEDHEEP-----CAFIEYVDQ 600
                 I I  +S  L    ++ E    FG ++     +    +E      CAF+ + ++
Sbjct: 207 TLEGREIMIRNLSTELLDENLLRESFEGFGSIE--KINIPAGQKEHSFNNCCAFMVFENK 264

Query: 601 LVTPKAIAGLNGLKVGGQVLT 621
               +A+  +N   +G + ++
Sbjct: 265 DSAERALQ-MNRSLLGNREIS 284

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 54.2 bits (131), Expect = 3e-08
 Identities = 40/194 (20%), Positives = 68/194 (35%), Gaps = 40/194 (20%)

Query: 453 SVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI----- 507
           + Q   +   M R+ V ++     E  + +    F          G  P     +     
Sbjct: 18  AAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPF----------G--PIKSIDMSWDSV 65

Query: 508 -QREKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKIKRPKEFVEVA------------- 552
             + KG AFVE+   E A  AL   +     G  +K+ RP    +               
Sbjct: 66  TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAF 125

Query: 553 --IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP----CAFIEYVDQLVTPKA 606
             I++  + + LS   +  +  AFG +K+    +  D          FIEY     +  A
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSAT--LARDPTTGKHKGYGFIEYEKAQSSQDA 183

Query: 607 IAGLNGLKVGGQVL 620
           ++ +N   +GGQ L
Sbjct: 184 VSSMNLFDLGGQYL 197

>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 = 52.7 bits (127), Expect = 9e-08
 Identities = 35/167 (20%), Positives = 68/167 (40%), Gaps = 13/167 (7%)

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-CCDGCSFSGSILKI------KRPKEFVEVAIFIGGISRTLSSKMVMEIVCAF 574
            DA  AL   +     G  ++I         ++     IFI  + +++ +K + +   AF
Sbjct: 68  ADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAF 127

Query: 575 GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT 621
           G + +     +E+  +   F+ +  Q    +AI  +NG+ +  + + 
Sbjct: 128 GNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF 174

>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: 635 SGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSV 694
           SG+   H + +  L   K+ + V+ L+N+ +P+      +++ +++  +V  EC +FG+V
Sbjct: 2   SGSSARHMVMQKLLR--KQESTVMVLRNMVDPK------DID-DDLEGEVTEECGKFGAV 52

Query: 695 KSVNV 699
             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: 888 DPNQGHIFEP---GCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 940
              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: 645 KHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 701
               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 = 40.8 bits (96), Expect = 2e-04
 Identities = 7/36 (19%), Positives = 12/36 (33%)

Query: 896 EPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEY 931
             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 = 49.9 bits (119), 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

>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

>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

>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 = 47.1 bits (112), Expect = 1e-06
 Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 10/89 (11%)

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--PKEFVEVA 552
            AL  +        +++     +++V   
Sbjct: 71  EALKRNRMLMIQRYVEVSPATERQWVAAG 99

>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: 649 PLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVK 701
            + 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: 888 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 940
           +       E   +F+E+ R E++  A   L+ R F  R+V   +  L+ +R  
Sbjct: 47  EIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVL 99

>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 = 49.7 bits (119), Expect = 2e-06
 Identities = 32/152 (21%), Positives = 55/152 (36%), Gaps = 20/152 (13%)

Query: 465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDA 524
           RL V NLP   +E+        +          G        I R++G  F+   +   A
Sbjct: 24  RLFVGNLPTDITEEDFKRLFERY----------G--EPSEVFINRDRGFGFIRLESRTLA 71

Query: 525 SAALCC-DGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP-LKAYHF 582
             A    DG       L+I+        A+ +  +S  +S++++ +    FGP  KA   
Sbjct: 72  EIAKAELDGTILKSRPLRIRFATH--GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVV- 128

Query: 583 EVNEDHEEP--CAFIEYVDQLVTPKAIAGLNG 612
            V +D        F+E+  +    KA+     
Sbjct: 129 -VVDDRGRATGKGFVEFAAKPPARKALERCGD 159

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 46.8 bits (111), Expect = 2e-06
 Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 5/78 (6%)

Query: 468 VENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASA 526
           +  LP +A+ + ++ F      ++ G + +       G    R  G AFV F   E A  
Sbjct: 28  MRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDG----RPTGDAFVLFACEEYAQN 83

Query: 527 ALCCDGCSFSGSILKIKR 544
           AL           +++ R
Sbjct: 84  ALRKHKDLLGKRYIELFR 101

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 46.0 bits (109), Expect = 2e-06
 Identities = 18/91 (19%), Positives = 31/91 (34%), Gaps = 12/91 (13%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           +       + V NLP  A    L   L             GS+P      Q  + +AF+ 
Sbjct: 14  EGAPLAADVYVGNLPRDARVSDLKRALRE----------LGSVPLR-LTWQGPRRRAFLH 62

Query: 518 FLTAEDASAAL-CCDGCSFSGSILKIKRPKE 547
           +  +  A  A+ C  G       L++   ++
Sbjct: 63  YPDSAAAQQAVSCLQGLRLGTDTLRVALARQ 93

>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

>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 = 2e-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

>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 = 47.1 bits (113), Expect = 4e-06
 Identities = 33/172 (19%), Positives = 62/172 (36%), Gaps = 26/172 (15%)

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-CCDGCSFSGSILKI----KRPKEFVEVA--IFIGGISRTLSSKMVMEIV 571
             + DA+ AL   +G     +I+KI    +  +   +    +F+G ++  +  + +    
Sbjct: 49  HQSHDANIALQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAF 108

Query: 572 CAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVLT 621
             F    + H   +          F+ +  Q     A+  + G  + G+ L 
Sbjct: 109 KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLR 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 = 1e-04
 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 = 6e-06
 Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
            +IG I    +   ++ +   FG +     +     E+ C FI+Y         I  L  
Sbjct: 30  AYIGNIPHFATEADLIPLFQNFGFIL----DFKHYPEKGCCFIKYDTHEQAAVCIVALAN 85

Query: 613 LKVGGQVL 620
               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 = 2e-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

>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 = 44.2 bits (105), 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

>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 = 44.8 bits (106), Expect = 9e-06
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 8/87 (9%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAA 527
           ++ LP  A  K +++F         +  V  S+        +  G+ FVEF    D  AA
Sbjct: 30  LKGLPFEAENKHVIDFF------KKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAA 83

Query: 528 LCCDGCSFSGSILKIKR--PKEFVEVA 552
           LC          +++     K  +E  
Sbjct: 84  LCRHKQYMGNRFIQVHPITKKGMLEKI 110

>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 = 46.0 bits (110), Expect = 9e-06
 Identities = 32/163 (19%), Positives = 62/163 (38%), Gaps = 25/163 (15%)

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-DGCSFSGSILKI----KRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP 576
            D+  A+   +G +     LK+       +   +  +++  + RT++   +  I   +G 
Sbjct: 56  MDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGS 115

Query: 577 LKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGG 617
           +   +   ++    P   AF+ Y  +    +AI+ LN +   G
Sbjct: 116 IVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG 158

>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

>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 = 45.6 bits (109), Expect = 1e-05
 Identities = 31/163 (19%), Positives = 64/163 (39%), Gaps = 25/163 (15%)

Query: 468 VENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREK------GQAFVEFLTA 521
           V  LP + +++       +           G      C + R+K      G  FV ++  
Sbjct: 7   VNYLPQNMTQEEFRSLFGSI----------G--EIESCKLVRDKITGQSLGYGFVNYIDP 54

Query: 522 EDASAALCC-DGCSFSGSILKIKR---PKEFVEVA-IFIGGISRTLSSKMVMEIVCAFGP 576
           +DA  A+   +G       +K+         +  A +++ G+ +T++ K + ++   +G 
Sbjct: 55  KDAEKAINTLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGR 114

Query: 577 LKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGG 617
           +      V++         FI +  ++   +AI GLNG K  G
Sbjct: 115 IITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 157

>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

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 1/68 (1%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           + I  I   L  +++  ++  +G +++   +VN D E     + Y  +    +A+  LNG
Sbjct: 18  LQIRNIPPHLQWEVLDSLLVQYGVVESCE-QVNTDSETAVVNVTYSSKDQARQALDKLNG 76

Query: 613 LKVGGQVL 620
            ++    L
Sbjct: 77  FQLENFTL 84

>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 = 42.6 bits (101), 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

>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

>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 = 5e-05
 Identities = 40/251 (15%), Positives = 72/251 (28%), Gaps = 18/251 (7%)

Query: 457 TQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE---KGQ 513
               RP   + + NL     +  L + L       G          +  ++ R    +GQ
Sbjct: 3   VPETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFG--------QILDILVSRSLKMRGQ 54

Query: 514 AFVEFLTAEDASAAL-CCDGCSFSGSILKIK--RPKEFVEVAIFIGGISRTLSSKMVMEI 570
           AFV F     A+ AL    G  F    ++I+  +    + +A   G        +   + 
Sbjct: 55  AFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDI-IAKMKGTFVERDRKREKRKP 113

Query: 571 VCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS 630
                P      +         A    V  +        +     G         ++   
Sbjct: 114 KSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPP 173

Query: 631 IMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECAR 690
            +     PP    P+  +P    P + L      +    ++L E   E +L        +
Sbjct: 174 GLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSM---LFNQ 230

Query: 691 FGSVKSVNVVK 701
           F   K V +V 
Sbjct: 231 FPGFKEVRLVP 241

>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 = 15/83 (18%), Positives = 35/83 (42%), Gaps = 9/83 (10%)

Query: 465 RLCVENLPLSASEKALMEFLNNF-LLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
            + V+N+P + S   +++F   + ++   V   +              G+A V F + ++
Sbjct: 17  VIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK-------GMPTGEAMVAFESRDE 69

Query: 524 ASAALC-CDGCSFSGSILKIKRP 545
           A+AA+   +        +K+  P
Sbjct: 70  ATAAVIDLNDRPIGSRKVKLSGP 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

>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 = 39.9 bits (94), Expect = 3e-04
 Identities = 19/83 (22%), Positives = 33/83 (39%), Gaps = 4/83 (4%)

Query: 536 SGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFI 595
           SGS  KI   K      +++GG+    S   +      FG ++     ++    +  A+I
Sbjct: 3   SGSSGKIGYGKANPTTRLWVGGLGPNTSLAALAREFDRFGSIR----TIDHVKGDSFAYI 58

Query: 596 EYVDQLVTPKAIAGLNGLKVGGQ 618
           +Y        A A + G  +GG 
Sbjct: 59  QYESLDAAQAACAKMRGFPLGGP 81

>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 = 41.5 bits (98), Expect = 8e-05
 Identities = 18/91 (19%), Positives = 31/91 (34%), Gaps = 13/91 (14%)

Query: 458 QSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVE 517
           ++     RL V NLP   +E+ + +    +          G        I ++KG  F+ 
Sbjct: 10  KTFTQRSRLFVGNLPPDITEEEMRKLFEKY----------GKA--GEVFIHKDKGFGFIR 57

Query: 518 FLTAEDASAALC-CDGCSFSGSILKIKRPKE 547
             T   A  A    D     G  L+++    
Sbjct: 58  LETRTLAEIAKVELDNMPLRGKQLRVRFACH 88

>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 = 8e-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

>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 = 40.9 bits (96), Expect = 1e-04
 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 14/84 (16%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
             + V+NLP  ++ + + + L ++     +++ +         + R K  AFV  L  E 
Sbjct: 6   SGILVKNLPQDSNCQEVHDLLKDY----DLKYCY---------VDRNKRTAFVTLLNGEQ 52

Query: 524 ASAAL-CCDGCSFSGSILKIKRPK 546
           A  A+      SF G  L ++   
Sbjct: 53  AQNAIQMFHQYSFRGKDLIVQLQP 76

>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

>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 = 40.7 bits (96), 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

>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 = 37/88 (42%), Gaps = 13/88 (14%)

Query: 456 LTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAF 515
           + QS+     +    +    +++ + +  + F          G +  +   +  EKG +F
Sbjct: 18  VNQSSPKNCTVYCGGIASGLTDQLMRQTFSPF----------GQI--MEIRVFPEKGYSF 65

Query: 516 VEFLTAEDASAALCC-DGCSFSGSILKI 542
           V F T E A+ A+   +G +  G ++K 
Sbjct: 66  VRFSTHESAAHAIVSVNGTTIEGHVVKC 93

>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 = 38.9 bits (91), Expect = 9e-04
 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           ++ GGI+  L+ +++ +    FG +     E+    E+  +F+ +        AI  +NG
Sbjct: 28  VYCGGIASGLTDQLMRQTFSPFGQIM----EIRVFPEKGYSFVRFSTHESAAHAIVSVNG 83

Query: 613 LKVGGQVL 620
             + G V+
Sbjct: 84  TTIEGHVV 91

>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

>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

>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 = 40.6 bits (95), Expect = 2e-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

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 15/91 (16%), Positives = 31/91 (34%), Gaps = 19/91 (20%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSG-VQHVHGSLPCIGCVI-----QREKGQAF 515
           P++ +    L  +  E  L +    +    G V+ V         ++     ++  G A 
Sbjct: 5   PLKEVTFARLNDNVRETFLKDMCRKY----GEVEEVE--------ILLHPRTRKHLGLAR 52

Query: 516 VEFLTAEDASAAL-CCDGCSFSGSILKIKRP 545
           V F +   A   +      S  G+I+  +  
Sbjct: 53  VLFTSTRGAKETVKNLHLTSVMGNIIHAQLD 83

>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 = 2e-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

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 40.3 bits (95), Expect = 3e-04
 Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 6/73 (8%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE----EPCAFIEYVDQLVTPKAIA 608
           +F+ G+    + + + +    +G +K  H  +N D      +    +EY        A+ 
Sbjct: 26  LFVTGVHEEATEEDIHDKFAEYGEIKNIH--LNLDRRTGYLKGYTLVEYETYKEAQAAME 83

Query: 609 GLNGLKVGGQVLT 621
           GLNG  + GQ ++
Sbjct: 84  GLNGQDLMGQPIS 96

>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

>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 = 40.4 bits (95), Expect = 3e-04
 Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 6/72 (8%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE--EP--CAFIEYVDQLVTPKAIA 608
           +F+  I        + E  C +G +K  H  +N D         A +EY        A  
Sbjct: 29  LFVTSIHEEAQEDEIQEKFCDYGEIKNIH--LNLDRRTGFSKGYALVEYETHKQALAAKE 86

Query: 609 GLNGLKVGGQVL 620
            LNG ++ GQ +
Sbjct: 87  ALNGAEIMGQTI 98

>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 = 3e-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

>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

>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 = 39.1 bits (92), Expect = 5e-04
 Identities = 16/73 (21%), Positives = 36/73 (49%), Gaps = 6/73 (8%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP----CAFIEYVDQLVTPKAIA 608
           +++G I    + + ++++    GP+   + ++  D +       AFIE+ D   +  A+ 
Sbjct: 5   VYLGSIPYDQTEEQILDLCSNVGPVI--NLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 62

Query: 609 GLNGLKVGGQVLT 621
            LNG ++G + L 
Sbjct: 63  NLNGYQLGSRFLK 75

>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 = 40.7 bits (96), Expect = 5e-04
 Identities = 31/167 (18%), Positives = 56/167 (33%), Gaps = 30/167 (17%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE--------KGQAF 515
            ++ V  +P + SEK L E    +          G        + R+        KG  F
Sbjct: 4   IKMFVGQVPRTWSEKDLRELFEQY----------G--AVYEINVLRDRSQNPPQSKGCCF 51

Query: 516 VEFLTAEDASAAL-CCDGCSFSGSILKIKRPK--------EFVEVAIFIGGISRTLSSKM 566
           V F T + A  A            +    + K           +  +FIG IS+  +   
Sbjct: 52  VTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTEND 111

Query: 567 VMEIVCAFGPLKAYHFEVNED-HEEPCAFIEYVDQLVTPKAIAGLNG 612
           +  +  +FG ++        D     CAF+ +  + +   AI  ++ 
Sbjct: 112 IRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQ 158

>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

>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

>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 = 6e-04
 Identities = 14/83 (16%), Positives = 30/83 (36%), Gaps = 10/83 (12%)

Query: 461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT 520
              R L + NLP   + + + +    +     ++ +   +          +G A+V +  
Sbjct: 6   EVNRILYIRNLPYKITAEEMYDIFGKY---GPIRQIR--VGNTP----ETRGTAYVVYED 56

Query: 521 AEDASAAL-CCDGCSFSGSILKI 542
             DA  A+    G + S   L +
Sbjct: 57  IFDAKNAVDHLSGFNVSNRYLVV 79

>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 = 40.2 bits (94), Expect = 7e-04
 Identities = 20/108 (18%), Positives = 40/108 (37%), Gaps = 12/108 (11%)

Query: 441 SASLAKLNVSMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSL 500
           + ++ + +          S     ++ V NL  + ++  L      +          G L
Sbjct: 51  TFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYY----------GPL 100

Query: 501 PCIGCVIQREKGQAFVEFLTAEDASAALCC-DGCSFSGSILKIKRPKE 547
             +  V +   G AFVEF    DA+ A+   DG +  G  ++++    
Sbjct: 101 RSV-WVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNG 147

>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 = 18/73 (24%), Positives = 33/73 (45%), Gaps = 7/73 (9%)

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 528
           V+F+T +DA  A 
Sbjct: 63  VDFITKQDAKKAF 75

>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

>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 = 21/97 (21%), Positives = 34/97 (35%), Gaps = 12/97 (12%)

Query: 450 SMDSVQLTQSNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-- 507
           S D         P + + + N+     ++ L   L     S G          +  V+  
Sbjct: 16  SPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQG--------DILDIVVDL 67

Query: 508 -QREKGQAFVEFLTAEDASAAL-CCDGCSFSGSILKI 542
                G+A++ F T E A A +    G  F G+ L I
Sbjct: 68  SDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVI 104

>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 Length = 93

 Score = 38.4 bits (90), Expect = 9e-04
 Identities = 11/67 (16%), Positives = 24/67 (35%), Gaps = 12/67 (17%)

Query: 462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA 521
            M +L + NL  + +   L +   +      +         +   +  + G AFV++   
Sbjct: 7   GMNKLYIGNLSPAVTADDLRQLFGDR----KL--------PLAGQVLLKSGYAFVDYPDQ 54

Query: 522 EDASAAL 528
             A  A+
Sbjct: 55  NWAIRAI 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	943
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
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.95
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	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
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.93
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.93
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.93
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.93
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.93
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.93
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.92
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.92
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.92
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.91
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.91
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.91
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.91
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.9
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.9
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.9
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.9
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.9
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.9
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.89
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.89
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.89
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.88
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.88
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.87
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.87
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.87
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.87
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.85
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.85
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.71
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.66
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.66
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.6
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.59
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.57
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.57
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.57
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.51
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.51
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.51
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.51
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.49
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.47
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.46
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.46
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.46
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.45
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.45
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.45
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.44
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.44
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.43
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.43
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.43
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.43
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.42
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.42
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.42
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.41
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.41
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.41
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.41
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.41
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.41
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.41
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.41
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.41
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.4
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.4
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.4
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.4
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.4
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.4
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.4
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.4
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.4
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.4
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.4
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.4
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.4
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.39
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.39
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.39
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.39
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.39
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.39
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.39
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.38
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.38
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.38
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.38
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.38
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.38
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.38
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.38
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.37
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.37
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.37
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.37
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.37
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.37
2div_A	99	TRNA selenocysteine associated protein; structural	99.37
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.37
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.37
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.36
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.36
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.36
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.36
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.36
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.36
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.36
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.36
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.36
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.35
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.35
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.35
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.35
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.35
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.35
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.35
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.35
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.34
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.34
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.34
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.34
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.34
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.33
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.33
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.33
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.33
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.33
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.33
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.33
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.33
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.33
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.33
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.33
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.33
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.33
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.33
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.32
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.32
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.32
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.32
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.32
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.32
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.32
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.32
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.32
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.32
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.31
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.31
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.31
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.31
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.31
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.31
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.31
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.31
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.31
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.31
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.31
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.31
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.31
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.31
2div_A	99	TRNA selenocysteine associated protein; structural	99.31
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.31
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.3
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.3
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.3
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.3
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.3
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.3
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.3
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.3
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.3
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.3
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.3
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.3
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.3
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.3
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.3
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.3
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.3
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.29
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.29
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.29
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.29
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.29
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.29
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.29
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.29
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.29
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.29
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.29
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.29
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.29
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.29
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.29
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.29
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.29
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.29
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.29
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.29
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.28
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.28
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.28
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.28
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.28
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.28
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.28
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.28
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.28
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.28
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.28
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.27
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.27
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.27
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.27
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.27
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.27
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.27
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.27
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.27
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.27
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.27
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.27
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.27
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.27
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.27
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.27
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.26
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.26
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.26
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.26
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.26
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.26
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.26
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.26
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.26
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.26
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.26
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.26
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.26
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.26
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.26
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.26
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.25
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.25
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.25
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.25
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.25
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.25
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.25
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.25
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.25
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.25
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.25
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.24
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.24
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.24
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.24
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.24
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.24
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.24
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.24
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.24
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.24
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.23
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.23
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.23
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.23
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.23
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.23
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.23
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.23
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.23
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.22
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.22
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.22
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.22
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.22
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.22
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.22
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.22
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.22
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.22
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.22
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.22
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.22
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.22
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.21
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.21
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.21
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.21
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.21
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.21
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.21
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.21
1x5p_A	97	Negative elongation factor E; structure genomics,	99.21
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.21
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.2
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.2
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.2
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.2
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.2
1x5p_A	97	Negative elongation factor E; structure genomics,	99.2
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.2
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.2
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.19
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.19
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.18
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.18
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.18
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.18
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.18
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.18
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.18
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.18
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.17
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.79
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.17
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.17
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.17
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.17
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.17
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.17
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.17
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.16
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.16
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.15
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.15
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.75
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.14
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.14
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.14
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.14
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.14
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.13
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.13
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.12
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.11
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.1
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.09
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.08
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.08
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.07
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.07
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.07
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.05
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.05
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.03
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.03
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.0
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.0
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.99
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.99
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.99
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.97
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.94
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.9
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.9
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.76
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.73
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.7
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.51
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.38
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.32
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.29
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.26
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.11
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.09
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.06
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.8
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.35
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.31
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.17
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	95.25
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	95.25
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	94.75
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	94.46
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.44
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	94.11
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	93.16
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	90.85
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	90.27
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	89.71
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	89.16
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	88.94
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	86.7
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	85.35
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	81.84
1jmt_B	28	Splicing factor U2AF 65 kDa subunit; RRM, RNA spli	81.43
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	80.19

>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=2.3e-35  Score=321.29  Aligned_cols=241  Identities=15%  Similarity=0.193  Sum_probs=211.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|+.||             |..+.++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        19 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G-------------i~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~   85 (284)
T 3smz_A           19 FRNRRKILIRGLPGDVTNQEVHDLLSDYE-------------LKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSRLRER   85 (284)
T ss_dssp             HHCCCEEEEECCCTTCCHHHHHHHTTTSC-------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC-------------CEEEEEecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCe
Confidence            34578999999999999999999998876             2445558899999999999999999998 999999999


Q ss_pred             cccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          539 ILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       539 ~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                      +|.|.....  ..+|||+|||..+++++|+++|+.||.|..+.++.+  ++.++|||||+|.+.++|.+|+..|+|..|.
T Consensus        86 ~i~v~~~~~--~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~  163 (284)
T 3smz_A           86 ELSVQLQPT--DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLG  163 (284)
T ss_dssp             ECEEEECCC--SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             EEEEEecCC--CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            999986432  238999999999999999999999999999999887  4567899999999999999999999999999


Q ss_pred             CeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcC-CCCCCChHHHHHHHHHHHHHhcCCCCeE
Q 002280          617 GQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPE-GFSSLSELEVEEVLEDVRLECARFGSVK  695 (943)
Q Consensus       617 gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~-~l~~i~~~~~~ei~eDlre~fskFG~V~  695 (943)
                      |+.|.|.++.+.....                  ...+..+|+|.||.... +.            ++|+++|++||.|.
T Consensus       164 g~~i~v~~a~~~~~~~------------------~~~~~~~l~v~nlp~~~~~~------------~~l~~~f~~~G~i~  213 (284)
T 3smz_A          164 PRTLYVHWTDAGQLTP------------------ALLHSRCLCVDRLPPGFNDV------------DALCRALSAVHSPT  213 (284)
T ss_dssp             TEECEEEECCGGGCCT------------------TTTSCSEEEEECCCTTCCCH------------HHHHHHTCSSSCCS
T ss_pred             CcEEEEEECCCCCCCc------------------ccCCccEEEEecCCcccCCH------------HHHHHHhhCCCCeE
Confidence            9999999986643311                  12457889999996542 32            68999999999999


Q ss_pred             EEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          696 SVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       696 ~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      .|.|+.+..|..+|+|||+|.+.++|.+|+..|||..|+++.+.|..+..
T Consensus       214 ~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~  263 (284)
T 3smz_A          214 FCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAP  263 (284)
T ss_dssp             EEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             EEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecC
Confidence            99999998899999999999999999999999999999999999988754

>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=1.9e-35  Score=323.25  Aligned_cols=244  Identities=13%  Similarity=0.131  Sum_probs=201.1

Q ss_pred             cCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee----ecCCCeeeEEeCCHHHHHHHHHccCCc
Q 002280          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI----QREKGQAFVEFLTAEDASAALCCDGCS  534 (943)
Q Consensus       459 ~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~----~~skGyAFVeF~s~edA~~Al~LnG~~  534 (943)
                      ..+..++|||+|||+.+|+++|+++|+.||.+            ..+.+    ..++|||||+|.+.++|..||.+||..
T Consensus        37 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i------------~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~  104 (292)
T 2ghp_A           37 RNRELTTVLVKNLPKSYNQNKVYKYFKHCGPI------------IHVDVADSLKKNFRFARIEFARYDGALAAITKTHKV  104 (292)
T ss_dssp             -----CEEEEEEECTTCCHHHHHHHHGGGSCE------------EEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEEECCCCCcEEEEEEECCHHHHHHHHHhCCcE
Confidence            35678999999999999999999999998843            33333    225899999999999999999999999


Q ss_pred             cccccccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcC-CeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCC
Q 002280          535 FSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNG  612 (943)
Q Consensus       535 l~Gr~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG-~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG  612 (943)
                      |.|++|.|.+....   +|||+|||..+++++|.++|+.|| .|..|.|+.+. +.++|||||+|.+.++|.+|+..|||
T Consensus       105 ~~g~~i~v~~~~~~---~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g  181 (292)
T 2ghp_A          105 VGQNEIIVSHLTEC---TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNG  181 (292)
T ss_dssp             ETTEECEEEECCSC---EEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTT
T ss_pred             eCCcEEEEEECCCC---EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence            99999999876433   999999999999999999999999 99999998774 56799999999999999999999999


Q ss_pred             CccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCc-CCCCCCChHHHHHHHHHHHHHhcCC
Q 002280          613 LKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNP-EGFSSLSELEVEEVLEDVRLECARF  691 (943)
Q Consensus       613 ~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~-~~l~~i~~~~~~ei~eDlre~fskF  691 (943)
                      ..|.|+.|.|.++.+.......              .....+..+|+|.||... .+.            ++|+++|++|
T Consensus       182 ~~~~g~~l~v~~a~~~~~~~~~--------------~~~~~~~~~l~v~nlp~~~~t~------------~~l~~~F~~~  235 (292)
T 2ghp_A          182 LKIEGYTLVTKVSNPLEKSKRT--------------DSATLEGREIMIRNLSTELLDE------------NLLRESFEGF  235 (292)
T ss_dssp             CEETTEECEEEECCCC-----------------------CCTTTEEEEEEECTTTCCH------------HHHHHHHGGG
T ss_pred             CEeCCcEEEEEECCCCcccccc--------------cccCCCCceEEEECCCcccCCH------------HHHHHHHhcc
Confidence            9999999999998765432111              011346789999999654 332            6899999999


Q ss_pred             CCeEEEEEecCCC--CCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          692 GSVKSVNVVKYGD--SNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       692 G~V~~V~I~r~~~--g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |.|+.|.|+++..  |..+|||||+|.+.++|.+|+ .|||..|+++.+.|..+.
T Consensus       236 G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~~a~  289 (292)
T 2ghp_A          236 GSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSLAD  289 (292)
T ss_dssp             SCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEEECC
T ss_pred             CCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEEEEec
Confidence            9999999999876  889999999999999999999 999999999999987764

>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=1.3e-27  Score=239.77  Aligned_cols=164  Identities=37%  Similarity=0.670  Sum_probs=149.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ++.++|||+|||+.+|+++|+++|++||.+.|+...+. .+|.++.++.++|||||+|.+.++|..|+.|||..|.|++|
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            35689999999999999999999999987777543332 37888999999999999999999999999999999999999


Q ss_pred             cccCCcccee----EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCc
Q 002280          541 KIKRPKEFVE----VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLK  614 (943)
Q Consensus       541 kV~rp~d~~~----~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~  614 (943)
                      .|.++..+..    .+|||+|||..+++++|+++|++||.|..+.++.+  ++.++|+|||+|.+.++|.+|+..|||..
T Consensus        81 ~v~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~  160 (172)
T 2g4b_A           81 KIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQ  160 (172)
T ss_dssp             EEECCSSCCCCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCE
T ss_pred             eecCCcccCCCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCE
Confidence            9998876544    39999999999999999999999999999999988  45669999999999999999999999999


Q ss_pred             cCCeEEEEEEc
Q 002280          615 VGGQVLTAVQA  625 (943)
Q Consensus       615 ~~gr~L~V~~A  625 (943)
                      |+|+.|.|.+|
T Consensus       161 ~~g~~l~V~~A  171 (172)
T 2g4b_A          161 LGDKKLLVQRA  171 (172)
T ss_dssp             ETTEECEEEEC
T ss_pred             ECCeEEEEEeC
Confidence            99999999987

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.95  E-value=4.6e-27  Score=241.07  Aligned_cols=167  Identities=37%  Similarity=0.659  Sum_probs=149.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|+.||.+.|+..++. .+|.++.++.++|||||+|.+.++|..||.|||..|.|++|.
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~-~~v~~~~~~~~~g~afV~F~~~~~A~~Al~l~g~~~~g~~i~   81 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPG-NPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLK   81 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSS-CSEEEEEEETTTTEEEEEESCSHHHHHHGGGTTEEETTEEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCC-CceEEeEecCCCCEEEEEeCCHHHHHHHHHhcCCEEcCceEE
Confidence            4689999999999999999999999998777654443 378899999999999999999999999999999999999999


Q ss_pred             ccCCccc------------------------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEE
Q 002280          542 IKRPKEF------------------------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFI  595 (943)
Q Consensus       542 V~rp~d~------------------------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFV  595 (943)
                      |.++..+                        ...+|||+|||..+++++|+++|++||.|..|.++.+  ++.++|||||
T Consensus        82 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV  161 (198)
T 2yh0_A           82 IRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFC  161 (198)
T ss_dssp             EECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEE
T ss_pred             EeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEE
Confidence            9976543                        1239999999999999999999999999999999988  4566999999


Q ss_pred             eecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          596 EYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       596 eF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|.+.++|.+|+..|||..|+|+.|.|.+|.+..
T Consensus       162 ~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  195 (198)
T 2yh0_A          162 EYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGA  195 (198)
T ss_dssp             EESSSSHHHHHHHHHTTCEETTEECEEEESCCCC
T ss_pred             EECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            9999999999999999999999999999997654

>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=1.1e-27  Score=250.79  Aligned_cols=162  Identities=21%  Similarity=0.288  Sum_probs=141.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||||||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. +|+..+.|+.
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 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSI------RVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKP   86 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEE------EEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcc
Confidence            356799999999999999999999999854332      133444568889999999999999999999 9999999999


Q ss_pred             ccccCCccce------eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC
Q 002280          540 LKIKRPKEFV------EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL  613 (943)
Q Consensus       540 LkV~rp~d~~------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~  613 (943)
                      |++..+....      ..+|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||.
T Consensus        87 i~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~  166 (213)
T 4f02_A           87 VRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGM  166 (213)
T ss_dssp             CEEEECCCCTHHHHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             cccccccccccccccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCC
Confidence            9988654321      1289999999999999999999999999999999998778999999999999999999999999


Q ss_pred             ccCCeEEEEEEcccC
Q 002280          614 KVGGQVLTAVQAVLD  628 (943)
Q Consensus       614 ~~~gr~L~V~~A~~~  628 (943)
                      .|+|+.|.|.+|.+.
T Consensus       167 ~~~g~~i~V~~a~~~  181 (213)
T 4f02_A          167 LLNDRKVFVGRFKSR  181 (213)
T ss_dssp             EETTEECEEEECCCH
T ss_pred             EECCEEEEEEEcCCC
Confidence            999999999998764

>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=2e-26  Score=232.05  Aligned_cols=159  Identities=16%  Similarity=0.233  Sum_probs=142.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|..||.+.++       .+.+..++.++|||||+|.+.++|..||+|||..|.|++
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            4567899999999999999999999999976552       567788999999999999999999999999999999999


Q ss_pred             ccccCCccc------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC
Q 002280          540 LKIKRPKEF------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL  613 (943)
Q Consensus       540 LkV~rp~d~------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~  613 (943)
                      |.|.++...      ...+|||+|||..+++++|+++|++||.|..+   ..++.++|||||+|.+.++|.+|+..|||.
T Consensus        83 l~v~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~A~~A~~~l~g~  159 (175)
T 1fje_B           83 IKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGA  159 (175)
T ss_dssp             EEEECCCCSSCSTTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE---CSSSSCCSEEEEECSSHHHHHHHHHHHTEE
T ss_pred             EEEecCCCccccccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe---cCCCCCceEEEEEECCHHHHHHHHHHhCCC
Confidence            999976532      22399999999999999999999999988766   456778999999999999999999999999


Q ss_pred             ccCCeEEEEEEcccC
Q 002280          614 KVGGQVLTAVQAVLD  628 (943)
Q Consensus       614 ~~~gr~L~V~~A~~~  628 (943)
                      .|.|+.|.|.+|.+.
T Consensus       160 ~~~g~~i~v~~a~~k  174 (175)
T 1fje_B          160 EIDGRSVSLYYTGEK  174 (175)
T ss_dssp             EETTEEEEEEECSSC
T ss_pred             EECCeEEEEEecCCC
Confidence            999999999998663

>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=1.2e-25  Score=245.61  Aligned_cols=152  Identities=10%  Similarity=0.020  Sum_probs=132.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+...++|||||+|.+.++|.+|+. |||..|.|+.|.|.++      
T Consensus        43 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i~v~~~------  115 (292)
T 2ghp_A           43 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL------  115 (292)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC------
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHH-hCCcEeCCcEEEEEEC------
Confidence            999999999999999999999999999999999877679999999999999999995 9999999999999864      


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCC-CeEEEEEecCCCCCccee
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG-SVKSVNVVKYGDSNISTI  710 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG-~V~~V~I~r~~~g~~~G~  710 (943)
                                            +..+|+|.||....+.            ++|+++|++|| .|..|.|+.+..+..+||
T Consensus       116 ----------------------~~~~l~v~nlp~~~t~------------~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~  161 (292)
T 2ghp_A          116 ----------------------TECTLWMTNFPPSYTQ------------RNIRDLLQDINVVALSIRLPSLRFNTSRRF  161 (292)
T ss_dssp             ----------------------CSCEEEEECCCTTCCH------------HHHHHHHHHTTCCCCEEECC-------CCE
T ss_pred             ----------------------CCCEEEEECCCCCCCH------------HHHHHHHHHhCCCeEEEEEEeCCCCCcceE
Confidence                                  2567999999654332            68999999999 999999999887888999


Q ss_pred             EEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          711 QACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       711 ~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||+|.+.++|.+|+..|||..|.++.+.|..+.
T Consensus       162 afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          162 AYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             EEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            9999999999999999999999999998887654

>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=99.93  E-value=2.9e-25  Score=241.56  Aligned_cols=149  Identities=14%  Similarity=0.154  Sum_probs=133.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||+|||..+++++|+++|+.|| |..+.+    +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.     
T Consensus        24 ~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~-----   93 (284)
T 3smz_A           24 KILIRGLPGDVTNQEVHDLLSDYE-LKYCFV----DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQP-----   93 (284)
T ss_dssp             EEEEECCCTTCCHHHHHHHTTTSC-EEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC-----
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE----ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecC-----
Confidence            899999999999999999999999 888887    3478999999999999999999999999999999998641     


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCccee
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTI  710 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~  710 (943)
                                            +..+|+|.||....+.            ++|+++|++||.|..|.|+.+ ..|..+||
T Consensus        94 ----------------------~~~~l~v~nlp~~~t~------------~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~  139 (284)
T 3smz_A           94 ----------------------TDALLCVANLPPSLTQ------------QQFEELVRPFGSLERCFLVYSERTGQSKGY  139 (284)
T ss_dssp             ----------------------CSCEEEEESCCTTCCH------------HHHHHHHGGGSCEEEEEEEECTTTCCEEEE
T ss_pred             ----------------------CCCEEEEcCCCCcCCH------------HHHHHHHHhcCCeeEEEEEeeCCCCccceE
Confidence                                  3467999999654332            689999999999999999876 47888999


Q ss_pred             EEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          711 QACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       711 ~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||+|.+.++|..|+..|||..|+++.+.+....
T Consensus       140 afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A          140 GFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             EEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            9999999999999999999999999999887754

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.93  E-value=4.2e-26  Score=226.47  Aligned_cols=156  Identities=19%  Similarity=0.249  Sum_probs=134.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      |+|||+|||+.+|+++|+++|+.||.+..+       .+.....+.++|||||+|.+.++|..|+. |||..+.|+.|.|
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 RVLYVGNLDKAITEDILKQYFQVGGPIANI-------KIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKI   73 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEE-------EEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEE-------EEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEE
Confidence            689999999999999999999999853322       11111236688999999999999999997 9999999999999


Q ss_pred             cCCccc------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCc
Q 002280          543 KRPKEF------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLK  614 (943)
Q Consensus       543 ~rp~d~------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~  614 (943)
                      ..+...      ...+|||+|||..+++++|+++|++||.|..+.++.+  ++.++|+|||+|.+.++|.+|+..|||..
T Consensus        74 ~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~  153 (166)
T 3md3_A           74 NWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQD  153 (166)
T ss_dssp             EECCCCCCCCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCE
T ss_pred             EEcCCCCCCCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCc
Confidence            864322      2339999999999999999999999999999999887  45668999999999999999999999999


Q ss_pred             cCCeEEEEEEcc
Q 002280          615 VGGQVLTAVQAV  626 (943)
Q Consensus       615 ~~gr~L~V~~A~  626 (943)
                      |+|+.|.|.+|.
T Consensus       154 ~~g~~i~v~~a~  165 (166)
T 3md3_A          154 LNGRPLRINWAA  165 (166)
T ss_dssp             ETTEECEEEESC
T ss_pred             cCCcEEEEEecC
Confidence            999999999884

>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=9.6e-26  Score=234.41  Aligned_cols=163  Identities=24%  Similarity=0.354  Sum_probs=140.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+.
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 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSI------DMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRN   99 (216)
T ss_dssp             HHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEE------EECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CC
T ss_pred             CcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEE------EEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCee
Confidence            346799999999999999999999999853332      122333467889999999999999999999 9999999999


Q ss_pred             ccccCCcccee---------------EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhH
Q 002280          540 LKIKRPKEFVE---------------VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLV  602 (943)
Q Consensus       540 LkV~rp~d~~~---------------~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~  602 (943)
                      |.|.++.....               .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++
T Consensus       100 l~v~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~  179 (216)
T 2qfj_A          100 IKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQS  179 (216)
T ss_dssp             CEEECCSCCGGGHHHHHHHHHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHH
T ss_pred             EEEecCCCccccchhhhhhhcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHH
Confidence            99987654321               29999999999999999999999999999999987  45668999999999999


Q ss_pred             HHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          603 TPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       603 A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      |.+|+..|||..|+|+.|.|.+|.+..
T Consensus       180 A~~A~~~l~g~~~~g~~i~V~~a~~~~  206 (216)
T 2qfj_A          180 SQDAVSSMNLFDLGGQYLRVGKAVTPP  206 (216)
T ss_dssp             HHHHHHHHTTCBCSSSBCEEEECSSCS
T ss_pred             HHHHHHHccCCEeCCcEEEEEEecCCC
Confidence            999999999999999999999987654

>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=99.93  E-value=7.5e-26  Score=231.66  Aligned_cols=164  Identities=17%  Similarity=0.286  Sum_probs=137.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||.+++..|.|+.
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 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDC------VVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRV   83 (196)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEE------EEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEE
Confidence            3457899999999999999999999999853321      1223334577899999999999999999999999999999


Q ss_pred             ccccCCccce----------eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHH
Q 002280          540 LKIKRPKEFV----------EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAI  607 (943)
Q Consensus       540 LkV~rp~d~~----------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl  607 (943)
                      |.|.++....          ..+|||+|||..+++++|+++|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+|+
T Consensus        84 l~v~~~~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~  163 (196)
T 1l3k_A           84 VEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV  163 (196)
T ss_dssp             CEEEECCC-----------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH
T ss_pred             eeeecccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHH
Confidence            9998654321          128999999999999999999999999999999988  4567999999999999999999


Q ss_pred             HHhCCCccCCeEEEEEEcccCCC
Q 002280          608 AGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       608 ~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .. +|..|.|+.|.|.+|.+...
T Consensus       164 ~~-~~~~~~G~~i~v~~a~~k~~  185 (196)
T 1l3k_A          164 IQ-KYHTVNGHNCEVRKALSKQE  185 (196)
T ss_dssp             HC-SCCEETTEECEEEECC----
T ss_pred             Hh-CCcEECCEEEEEEecCChhH
Confidence            86 89999999999999977554

>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=1.5e-25  Score=223.51  Aligned_cols=158  Identities=19%  Similarity=0.288  Sum_probs=136.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +.++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |+|..+.|++|
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 SNTNLIVNYLPQDMTDRELYALFRAIGPINTC------RIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRL   75 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEE------EEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEE
Confidence            35799999999999999999999999853322      123333467789999999999999999998 99999999999


Q ss_pred             cccCCcc----ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCc
Q 002280          541 KIKRPKE----FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLK  614 (943)
Q Consensus       541 kV~rp~d----~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~  614 (943)
                      .|.+...    ....+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|+|||+|.+.++|.+|+..|||..
T Consensus        76 ~v~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~  155 (168)
T 1b7f_A           76 KVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVI  155 (168)
T ss_dssp             EEEECCCCSSTTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCC
T ss_pred             EEEecCCCcccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCE
Confidence            9986442    223399999999999999999999999999999998874  5568999999999999999999999999


Q ss_pred             cCC--eEEEEEEc
Q 002280          615 VGG--QVLTAVQA  625 (943)
Q Consensus       615 ~~g--r~L~V~~A  625 (943)
                      |.|  ++|.|.+|
T Consensus       156 ~~g~~~~l~V~~A  168 (168)
T 1b7f_A          156 PEGGSQPLSVRLA  168 (168)
T ss_dssp             CTTCSSCCEEEEC
T ss_pred             ecCCCeEEEEEeC
Confidence            977  99999875

>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=1.3e-25  Score=224.07  Aligned_cols=159  Identities=14%  Similarity=0.221  Sum_probs=137.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      +.++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. ++..+.|+.|.
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 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDL------KIMKDPATGRSRGFGFLSFEKPSSVDEVVK-TQHILDGKVID   74 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEE------ECCCCTTTSSCCSCEEEEESSTHHHHHHHH-SCCEETTEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEE------EEEECCCCCCccceEEEEEccHHHHHHHHh-cccccCCeEcc
Confidence            46799999999999999999999999854332      123333567889999999999999999999 35789999999


Q ss_pred             ccCCccc----eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          542 IKRPKEF----VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       542 V~rp~d~----~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      |.++...    ...+|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+. |+|..|
T Consensus        75 v~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~  153 (167)
T 2cjk_A           75 PKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDF  153 (167)
T ss_dssp             CEECCCHHHHHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECS
T ss_pred             cccccchhhccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEe
Confidence            8865432    2339999999999999999999999999999999887  46779999999999999999998 999999


Q ss_pred             CCeEEEEEEcccC
Q 002280          616 GGQVLTAVQAVLD  628 (943)
Q Consensus       616 ~gr~L~V~~A~~~  628 (943)
                      +|+.|.|.+|.|.
T Consensus       154 ~g~~i~V~~a~pk  166 (167)
T 2cjk_A          154 KDRKIEIKRAEPR  166 (167)
T ss_dssp             SSSCEEEEECCCC
T ss_pred             CCeEEEEeecCCC
Confidence            9999999998763

>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=99.92  E-value=9.7e-25  Score=216.86  Aligned_cols=157  Identities=18%  Similarity=0.351  Sum_probs=134.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      .++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..+.|++|.
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 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESC------KLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIK   75 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEE------EEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEE
Confidence            5799999999999999999999999853322      122333356778999999999999999999 999999999999


Q ss_pred             ccCCccc----eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          542 IKRPKEF----VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       542 V~rp~d~----~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      |......    ...+|||+|||..+++++|+++|++||.|..+.++.+.  +.++|+|||+|.+.++|.+|+..|||..|
T Consensus        76 v~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~  155 (167)
T 1fxl_A           76 VSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKP  155 (167)
T ss_dssp             EEECCCCCGGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             EEecCCCcccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCcc
Confidence            9865432    22389999999999999999999999999999998874  45689999999999999999999999999


Q ss_pred             CCeE--EEEEEc
Q 002280          616 GGQV--LTAVQA  625 (943)
Q Consensus       616 ~gr~--L~V~~A  625 (943)
                      .|+.  |.|.+|
T Consensus       156 ~g~~~~i~v~~A  167 (167)
T 1fxl_A          156 SGATEPITVKFA  167 (167)
T ss_dssp             TTCSSCCEEEEC
T ss_pred             CCCccceEEEeC
Confidence            9965  888765

>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=1.7e-24  Score=216.99  Aligned_cols=158  Identities=18%  Similarity=0.263  Sum_probs=131.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee--cCCCeeeEEeCCHHHHHHHHH-ccCCccc--
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ--REKGQAFVEFLTAEDASAALC-CDGCSFS--  536 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~--~skGyAFVeF~s~edA~~Al~-LnG~~l~--  536 (943)
                      ..++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++  .++|||||+|.+.++|..|+. |||..+.  
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 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEI------NVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPG   75 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTT
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEE------EEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccC
Confidence            35799999999999999999999999853321      122233333  789999999999999999999 9998765  


Q ss_pred             -cccccccCCcc-----ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHH
Q 002280          537 -GSILKIKRPKE-----FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAG  609 (943)
Q Consensus       537 -Gr~LkV~rp~d-----~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~  609 (943)
                       ++.+.+..+..     ....+|||+|||..+++++|+++|++||.|..+.++.+ .+.++|||||+|.+.++|.+|+..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~  155 (175)
T 3nmr_A           76 MHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA  155 (175)
T ss_dssp             CSSCCEEEECGGGCCSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             CccceEEccccccccccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHH
Confidence             46666654332     12339999999999999999999999999999999887 445689999999999999999999


Q ss_pred             hCCCccC---CeEEEEEEc
Q 002280          610 LNGLKVG---GQVLTAVQA  625 (943)
Q Consensus       610 LnG~~~~---gr~L~V~~A  625 (943)
                      |||..+.   +++|.|.+|
T Consensus       156 l~g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A          156 MHQAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             HTTSCCCTTCSSCCEEEEC
T ss_pred             hcCCcccCCCCCCeEEEec
Confidence            9998775   499999987

>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=8e-24  Score=210.00  Aligned_cols=161  Identities=14%  Similarity=0.166  Sum_probs=142.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..+.|+.|.|.++.+...
T Consensus         2 ~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~~   81 (166)
T 3md3_A            2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQQ   81 (166)
T ss_dssp             EEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCCC
T ss_pred             EEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCCC
Confidence            79999999999999999999999999999998874 56789999999999999999999999999999999998855332


Q ss_pred             cCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcce
Q 002280          631 IMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIST  709 (943)
Q Consensus       631 ~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G  709 (943)
                      .                   ...++.+|+|.||....+.            ++|+++|++||.|..|.|+.+ ..+..+|
T Consensus        82 ~-------------------~~~~~~~l~v~nl~~~~t~------------~~l~~~f~~~G~i~~~~i~~~~~~~~~~g  130 (166)
T 3md3_A           82 S-------------------SSDDTFNLFVGDLNVNVDD------------ETLRNAFKDFPSYLSGHVMWDMQTGSSRG  130 (166)
T ss_dssp             C-------------------CCTTCEEEEEESCCTTCCH------------HHHHHHHTTSTTEEEEEEEECTTTCCEEE
T ss_pred             C-------------------CCCCCceEEECCCCCCCCH------------HHHHHHHhccCCeeEEEEEecCCCCCcce
Confidence            1                   1346789999999654332            689999999999999999987 5678899


Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          710 IQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       710 ~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      +|||+|.+.++|.+|+..|||..|+++.+.|..+
T Consensus       131 ~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a  164 (166)
T 3md3_A          131 YGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA  164 (166)
T ss_dssp             EEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             EEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEec
Confidence            9999999999999999999999999999988764

>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=99.91  E-value=1.3e-23  Score=209.41  Aligned_cols=158  Identities=14%  Similarity=0.205  Sum_probs=139.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.++.+  ++.++|||||+|.+.++|.+|+..|+|..+.|+.|.|.++.+..
T Consensus         5 ~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~   84 (168)
T 1b7f_A            5 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGG   84 (168)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecCCCc
Confidence            8999999999999999999999999999999887  45578999999999999999999999999999999999886533


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      .                     ..+..+|+|.||....+.            ++|+++|++||.|..|.|+++. .+..+
T Consensus        85 ~---------------------~~~~~~l~v~nl~~~~t~------------~~l~~~f~~~G~i~~~~i~~~~~~~~~~  131 (168)
T 1b7f_A           85 E---------------------SIKDTNLYVTNLPRTITD------------DQLDTIFGKYGSIVQKNILRDKLTGRPR  131 (168)
T ss_dssp             S---------------------TTTTCEEEEESCCTTCCH------------HHHHHHHTSSSCEEEEEEEECTTTCCEE
T ss_pred             c---------------------cCCCCCEEEeCCCCCCCH------------HHHHHhhhcCCcEEEEEEEEcCCCCCcc
Confidence            2                     235678999999753332            6899999999999999999885 78889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCC--CceEEEE
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNE--KGERLEE  742 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~--k~~~v~~  742 (943)
                      |+|||+|.+.++|.+|+..|||..|.+  +.+.|..
T Consensus       132 g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~  167 (168)
T 1b7f_A          132 GVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL  167 (168)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             eEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEe
Confidence            999999999999999999999999987  6666643

>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=1.5e-23  Score=208.33  Aligned_cols=158  Identities=10%  Similarity=0.175  Sum_probs=138.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..+.++.+  ++.++|||||+|.+.++|.+|+..|||..+.|+.|.|.++.+..
T Consensus         4 ~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~   83 (167)
T 1fxl_A            4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSS   83 (167)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCCCc
Confidence            7999999999999999999999999999999887  45668999999999999999999999999999999999886533


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      .                     ..+...|+|.||....+.            ++|+++|++||.|..|.|+.+. .|..+
T Consensus        84 ~---------------------~~~~~~l~v~nl~~~~t~------------~~l~~~f~~~G~i~~~~i~~~~~~g~~~  130 (167)
T 1fxl_A           84 A---------------------SIRDANLYVSGLPKTMTQ------------KELEQLFSQYGRIITSRILVDQVTGVSR  130 (167)
T ss_dssp             G---------------------GGTTCEEEEESCCTTCCH------------HHHHHHHGGGSCEEEEEEEECTTTCCEE
T ss_pred             c---------------------cCCCCcEEECCCCCcCCH------------HHHHHHHHhcCCEeEEEEEecCCCCCcc
Confidence            2                     124577999999654332            6899999999999999999875 67789


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      |||||+|.+.++|.+|+..|||..|.++.+.|..
T Consensus       131 g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v  164 (167)
T 1fxl_A          131 GVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV  164 (167)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             ceEEEEeCCHHHHHHHHHHhcCCccCCCccceEE
Confidence            9999999999999999999999999998755433

>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=5.3e-24  Score=222.74  Aligned_cols=161  Identities=13%  Similarity=0.155  Sum_probs=140.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|+|+++  ++.++|||||+|.+.++|.+|+..|||..+.|+.|.+.++....
T Consensus        17 tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~~~   96 (213)
T 4f02_A           17 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDP   96 (213)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCT
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccccccc
Confidence            8999999999999999999999999999999987  45678999999999999999999999999999999998774432


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcce
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIST  709 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G  709 (943)
                      ...                   ......|+|.||....+.            ++|+++|++||.|+.|.|+++.. ..+|
T Consensus        97 ~~~-------------------~~~~~~l~v~nl~~~~t~------------~~l~~~F~~~G~i~~~~i~~d~~-~~~g  144 (213)
T 4f02_A           97 SLR-------------------KSGVGNIFIKNLDKSIDN------------KALYDTFSAFGNILSCKVVCDEN-GSKG  144 (213)
T ss_dssp             HHH-------------------HHCTTEEEEESCCTTCCH------------HHHHHHHGGGSCEEEEEEEEETT-EEEE
T ss_pred             ccc-------------------ccccccceECCcccccHH------------HHHHHHHhhcCCeEEEEeeccCC-CCce
Confidence            210                   123457999999653332            68999999999999999998754 4689


Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          710 IQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       710 ~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      ||||+|.+.++|.+|+..|||..|+++.+.|....
T Consensus       145 ~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          145 YGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             EEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             EEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            99999999999999999999999999999997764

>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=99.90  E-value=1.2e-23  Score=219.37  Aligned_cols=152  Identities=12%  Similarity=0.094  Sum_probs=128.9

Q ss_pred             CCCeEEEcCCC-CCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee-cCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          462 PMRRLCVENLP-LSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP-~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~-~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      +..+|||+||| +.+|+++|+++|.+||.            |.++.+- ..+|||||+|.+.++|..||. |||..|.|+
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            46799999999 89999999999999884            4444433 358999999999999999999 999999999


Q ss_pred             cccccCCcc--------------------c---------------------eeEEEEEecCCCCCCHHHHHHHHhhcCCe
Q 002280          539 ILKIKRPKE--------------------F---------------------VEVAIFIGGISRTLSSKMVMEIVCAFGPL  577 (943)
Q Consensus       539 ~LkV~rp~d--------------------~---------------------~~~~LfV~NLp~~~teedL~e~Fs~fG~I  577 (943)
                      +|.|...+.                    +                     ...+|||+|||+.+++++|+++|++||.|
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            999884320                    0                     01179999999999999999999999999


Q ss_pred             --eEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCe----EEEEEEc
Q 002280          578 --KAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ----VLTAVQA  625 (943)
Q Consensus       578 --~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr----~L~V~~A  625 (943)
                        ..++++.+.+..+|+|||+|.+.++|.+||..|||..|.|.    ++.|.+|
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              88998877655679999999999999999999999999876    4555543

>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=99.90  E-value=2.3e-23  Score=226.32  Aligned_cols=155  Identities=20%  Similarity=0.288  Sum_probs=132.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHH----HHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          460 NRPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~----elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      ..+.++|||+|||+.+|+++|+    ++|..||.+..         |.-..++.++|||||+|.+.++|..||. |||..
T Consensus         6 ~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~---------v~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~   76 (282)
T 3pgw_A            6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILD---------ILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFP   76 (282)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEE---------EEEcCCCCcceEEEEEECCHHHHHHHHHHhcCCe
Confidence            4668999999999999999977    88888874322         1111267899999999999999999997 99999


Q ss_pred             cccccccccCCccce-----------------------------------------------------------------
Q 002280          535 FSGSILKIKRPKEFV-----------------------------------------------------------------  549 (943)
Q Consensus       535 l~Gr~LkV~rp~d~~-----------------------------------------------------------------  549 (943)
                      |.|+.|+|.+.....                                                                 
T Consensus        77 ~~g~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (282)
T 3pgw_A           77 FYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHH  156 (282)
T ss_pred             eCCcEEEEEEeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCccccccccccc
Confidence            999999987432110                                                                 


Q ss_pred             --------------------------------------------------eEEEEEecCCCCCCHHHHHHHHhhcCCeeE
Q 002280          550 --------------------------------------------------EVAIFIGGISRTLSSKMVMEIVCAFGPLKA  579 (943)
Q Consensus       550 --------------------------------------------------~~~LfV~NLp~~~teedL~e~Fs~fG~I~~  579 (943)
                                                                        ..+|||+|||..+++++|+++|++||.|..
T Consensus       157 ~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~  236 (282)
T 3pgw_A          157 MPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKE  236 (282)
T ss_pred             CCCCCCCCCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEE
Confidence                                                              126999999999999999999999999999


Q ss_pred             EEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEEEcc
Q 002280          580 YHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAV  626 (943)
Q Consensus       580 v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~~A~  626 (943)
                      |.|+.+   .+|||||+|.+.++|.+|+..|||..|. |+.|.|.+|.
T Consensus       237 v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          237 VRLVPG---RHDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             EEEecC---CCcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            999865   3699999999999999999999999999 9999999874

>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=99.90  E-value=4.2e-23  Score=218.32  Aligned_cols=152  Identities=17%  Similarity=0.211  Sum_probs=132.6

Q ss_pred             CCCCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecC-CCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          461 RPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQRE-KGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~s-kGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      .+.++|||+|||+ .+|+++|+++|+.||.            |..+.+... +|||||+|.+.++|..|+. |||..|.|
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            4578999999999 9999999999999984            344444332 7999999999999999998 99999999


Q ss_pred             ccccccCCccc---------------------------------------eeEEEEEecCCCCCCHHHHHHHHhhcC-Ce
Q 002280          538 SILKIKRPKEF---------------------------------------VEVAIFIGGISRTLSSKMVMEIVCAFG-PL  577 (943)
Q Consensus       538 r~LkV~rp~d~---------------------------------------~~~~LfV~NLp~~~teedL~e~Fs~fG-~I  577 (943)
                      +.|.|......                                       ...+|||+|||..+++++|+++|++|| .|
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            99999743211                                       012899999999999999999999999 99


Q ss_pred             eEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEEEccc
Q 002280          578 KAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVL  627 (943)
Q Consensus       578 ~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~~A~~  627 (943)
                      ..|.|+..   ++|+|||+|.+.++|.+|+..|||..|. |+.|.|.++.+
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            99998654   5899999999999999999999999999 99999999865

>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=1.9e-23  Score=225.30  Aligned_cols=154  Identities=19%  Similarity=0.267  Sum_probs=137.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|+.||            .|..+.++.++|||||+|.+.++|..|+. |||..|.|+.
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            4467999999999999999999999988            45667778889999999999999999999 9999999999


Q ss_pred             ccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhC-CCccC-
Q 002280          540 LKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLN-GLKVG-  616 (943)
Q Consensus       540 LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~Ln-G~~~~-  616 (943)
                      |.|.....  ..+|||+|||..+++++|+++|+.||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|| |..+. 
T Consensus        88 l~v~~a~~--~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~  165 (261)
T 3sde_A           88 LRIRFATH--GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLT  165 (261)
T ss_dssp             CEEEECCC--SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESS
T ss_pred             eEeeeccc--CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEec
Confidence            99987654  238999999999999999999999999999999888 45679999999999999999999995 55544 


Q ss_pred             --CeEEEEEEcccC
Q 002280          617 --GQVLTAVQAVLD  628 (943)
Q Consensus       617 --gr~L~V~~A~~~  628 (943)
                        +++|.|.++.+.
T Consensus       166 ~~~r~i~v~~~~~~  179 (261)
T 3sde_A          166 TTPRPVIVEPMEQF  179 (261)
T ss_dssp             SSCCBCEEEECCCE
T ss_pred             CCCceEEEeecccc
Confidence              999999988654

>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=8.7e-23  Score=204.54  Aligned_cols=159  Identities=14%  Similarity=0.189  Sum_probs=136.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC----CCCCEEEEeecChhHHHHHHHHhCCCccC---CeEEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED----HEEPCAFIEYVDQLVTPKAIAGLNGLKVG---GQVLTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~----~skG~aFVeF~~~e~A~kAl~~LnG~~~~---gr~L~V~~  624 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+..    .++|||||+|.+.++|.+|+..|||..+.   ++.+.+.+
T Consensus         5 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~   84 (175)
T 3nmr_A            5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKP   84 (175)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEcc
Confidence            899999999999999999999999999999998843    46899999999999999999999998775   57777776


Q ss_pred             cccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCC
Q 002280          625 AVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD  704 (943)
Q Consensus       625 A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~  704 (943)
                      +.+....                    ..+.+.|+|.||....+.            ++|+++|++||.|+.|.|+++..
T Consensus        85 ~~~~~~~--------------------~~~~~~l~v~nl~~~~t~------------~~l~~~F~~~G~i~~v~~~~~~~  132 (175)
T 3nmr_A           85 ADSEKNN--------------------AVEDRKLFIGMISKKCTE------------NDIRVMFSSFGQIEECRILRGPD  132 (175)
T ss_dssp             CGGGCCS--------------------CGGGSEEEEESCCTTCCH------------HHHHHHHGGGSCEEEEEEEECTT
T ss_pred             ccccccc--------------------cCCCCeEEEcCCCCcCCH------------HHHHHHHHhCCCEEEEEEEECCC
Confidence            6443221                    234678999999654332            68999999999999999999988


Q ss_pred             CCcceeEEEEeCCHHHHHHHHHHhCCCccCC---CceEEEE
Q 002280          705 SNISTIQACEGNENTASAGVGQNLTNDETNE---KGERLEE  742 (943)
Q Consensus       705 g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~---k~~~v~~  742 (943)
                      |..+|||||+|.+.++|.+|+..|||..+.+   +.+.|..
T Consensus       133 g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~  173 (175)
T 3nmr_A          133 GLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKF  173 (175)
T ss_dssp             SCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEE
T ss_pred             CCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEe
Confidence            8899999999999999999999999998874   6777654

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.90  E-value=1.1e-22  Score=211.34  Aligned_cols=173  Identities=15%  Similarity=0.209  Sum_probs=143.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++....
T Consensus        30 ~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~~~  109 (216)
T 2qfj_A           30 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIG  109 (216)
T ss_dssp             EEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSCCG
T ss_pred             EEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCCcc
Confidence            8999999999999999999999999999999887  45679999999999999999999999999999999998764432


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~  708 (943)
                      ......          ........+..+|+|.||....+            .++|+++|++||.|+.|.|+.+ ..+..+
T Consensus       110 ~~~~~~----------~~~~~~~~~~~~l~v~nlp~~~t------------~~~l~~~f~~~G~v~~v~i~~~~~~g~~~  167 (216)
T 2qfj_A          110 QAQPII----------DQLAEEARAFNRIYVASVHQDLS------------DDDIKSVFEAFGKIKSATLARDPTTGKHK  167 (216)
T ss_dssp             GGHHHH----------HHHHHHHTTSCEEEEECCCTTCC------------HHHHHHHHTTSSCEEEEEEEECTTTCCEE
T ss_pred             ccchhh----------hhhhcccCCCcEEEEeCCCCcCC------------HHHHHHHHhccCCeeEEEEEecCCCCCcC
Confidence            110000          00000124568999999965433            2689999999999999999987 467889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDH  746 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~  746 (943)
                      |||||+|.+.++|.+|+..|||..|+++.+.|..+...
T Consensus       168 g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~~  205 (216)
T 2qfj_A          168 GYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTP  205 (216)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSSC
T ss_pred             ceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecCC
Confidence            99999999999999999999999999999999887653

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.89  E-value=3.3e-23  Score=213.12  Aligned_cols=150  Identities=17%  Similarity=0.217  Sum_probs=130.3

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec-CCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          463 MRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       463 ~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~-skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .++|||+|||+ .+|+++|+++|+.||.+            ..+.+.. .+|||||+|.+.++|..|+. |||..|.|++
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 NSVLLVSNLNPERVTPQSLFILFGVYGDV------------QRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKP   70 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCC------------SEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCE------------EEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeE
Confidence            57999999999 99999999999998843            3333322 27999999999999999999 9999999999


Q ss_pred             ccccCCccc---------------------------------------eeEEEEEecCCCCCCHHHHHHHHhhcC-CeeE
Q 002280          540 LKIKRPKEF---------------------------------------VEVAIFIGGISRTLSSKMVMEIVCAFG-PLKA  579 (943)
Q Consensus       540 LkV~rp~d~---------------------------------------~~~~LfV~NLp~~~teedL~e~Fs~fG-~I~~  579 (943)
                      |.|......                                       ...+|||+|||..+++++|+++|++|| .|..
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            999633210                                       022899999999999999999999999 9999


Q ss_pred             EEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC-CeEEEEEEccc
Q 002280          580 YHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-GQVLTAVQAVL  627 (943)
Q Consensus       580 v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-gr~L~V~~A~~  627 (943)
                      |.|+.+   .+|+|||+|.+.++|.+|+..|||..|+ |+.|.|.++.+
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            998664   4899999999999999999999999999 99999999865

>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=1.9e-22  Score=206.29  Aligned_cols=166  Identities=12%  Similarity=0.168  Sum_probs=138.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+.. +|..|.|+.|.|.++.+..
T Consensus        15 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~~~~~   93 (196)
T 1l3k_A           15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSRE   93 (196)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEECCC--
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecccCcc
Confidence            99999999999999999999999999999999873  55789999999999999999975 9999999999999886543


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~  708 (943)
                      ....               +....+.++|+|.||....+            .++|+++|++||.|+.|.|+.+. .+..+
T Consensus        94 ~~~~---------------~~~~~~~~~l~V~nLp~~~t------------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~  146 (196)
T 1l3k_A           94 DSQR---------------PGAHLTVKKIFVGGIKEDTE------------EHHLRDYFEQYGKIEVIEIMTDRGSGKKR  146 (196)
T ss_dssp             ------------------------CCSEEEEECCTTTCC------------HHHHHHHHTTTSCEEEEEEEECTTTCCEE
T ss_pred             cccc---------------cccCCCcceEEEeCCCCCCC------------HHHHHHHHhcCCCeEEEEEeecCCCCCcc
Confidence            2110               11124568899999965333            26899999999999999999874 67889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccc
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDH  746 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~  746 (943)
                      |||||+|.+.++|.+|+.. +|..|+++.+.|..+...
T Consensus       147 g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~k  183 (196)
T 1l3k_A          147 GFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALSK  183 (196)
T ss_dssp             EEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC--
T ss_pred             ceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCCh
Confidence            9999999999999999987 799999999999887653

>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=2e-22  Score=210.12  Aligned_cols=171  Identities=18%  Similarity=0.221  Sum_probs=135.0

Q ss_pred             EEEEecCC-CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp-~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+||| ..+++++|+++|++||.|..|+|+++   .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.....
T Consensus         6 ~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~---~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~~~   82 (205)
T 3tyt_A            6 VLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS---KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAI   82 (205)
T ss_dssp             EEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT---STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSCC
T ss_pred             EEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCCcc
Confidence            89999999 89999999999999999999999875   589999999999999999999999999999999999864332


Q ss_pred             cCCC-----CCCC---CCCCCCC--------CcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCe
Q 002280          631 IMDN-----SGNP---PFHGIPK--------HALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSV  694 (943)
Q Consensus       631 ~~~~-----~~~~---~~~~ip~--------~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V  694 (943)
                      ....     .+..   .+.+.+.        ........|+++|+|.||....+.            ++|+++|++||.|
T Consensus        83 ~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~------------~~L~~~F~~~G~v  150 (205)
T 3tyt_A           83 MPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTE------------ENFFEICDELGVK  150 (205)
T ss_dssp             CCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCH------------HHHHHHHHHHTCC
T ss_pred             CCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCH------------HHHHHHHHhcCCc
Confidence            1100     0000   0000000        000112357889999999653332            6899999999999


Q ss_pred             --EEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCce
Q 002280          695 --KSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGE  738 (943)
Q Consensus       695 --~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~  738 (943)
                        .+|.|+.+. +..+|+|||+|.+.++|.+|+..|||..|.+...
T Consensus       151 ~~~~v~~~~~~-~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~  195 (205)
T 3tyt_A          151 RPTSVKVFSGK-SERSSSGLLEWDSKSDALETLGFLNHYQMKNPNG  195 (205)
T ss_dssp             CCSEEEECSCC-SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSS
T ss_pred             ceEEEEEEcCC-CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCC
Confidence              899998765 4556999999999999999999999999987753

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.88  E-value=8e-22  Score=201.97  Aligned_cols=176  Identities=19%  Similarity=0.242  Sum_probs=141.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc----C-------CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f----G-------~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|||+|||..+++++|+++|+.|    |       .|..+.+.    .++|||||+|.+.++|.+|+ .|||..|.|+.|
T Consensus         6 ~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~----~~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i   80 (198)
T 2yh0_A            6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN----QDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSL   80 (198)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEE----TTTTEEEEEESCSHHHHHHG-GGTTEEETTEEE
T ss_pred             EEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEec----CCCCEEEEEeCCHHHHHHHH-HhcCCEEcCceE
Confidence            89999999999999999999999    5       56666553    36899999999999999999 899999999999


Q ss_pred             EEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEe
Q 002280          621 TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVV  700 (943)
Q Consensus       621 ~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~  700 (943)
                      .|.++.+.......... +....+.........+..+|+|.||....+.            ++|+++|++||.|..|.|+
T Consensus        81 ~v~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~------------~~l~~~f~~~G~v~~~~~~  147 (198)
T 2yh0_A           81 KIRRPHDYQPLPGMSEN-PSVYVPGVVSTVVPDSAHKLFIGGLPNYLND------------DQVKELLTSFGPLKAFNLV  147 (198)
T ss_dssp             EEECCCCCCCCCCSSSC-SSCCCTTSSCCCSSCCCCEEEEECCCTTCCH------------HHHHHHHHTBSCEEEEEEE
T ss_pred             EEeCCCCCCCCCCCcCC-CcCCCCCCccCCCCCCCCEEEEeCCCCCCCH------------HHHHHHHHHcCCccEEEEe
Confidence            99988654332211111 1111111112223457889999999763332            6899999999999999999


Q ss_pred             cCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          701 KYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       701 r~~-~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      .+. .+..+|||||+|.+.++|.+|+..|||..|+++.+.|..+..
T Consensus       148 ~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  193 (198)
T 2yh0_A          148 KDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV  193 (198)
T ss_dssp             ECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             ecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            885 788899999999999999999999999999999999987654

>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=99.88  E-value=5e-22  Score=198.89  Aligned_cols=154  Identities=19%  Similarity=0.238  Sum_probs=133.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc----C-------CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f----G-------~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|||+|||..+++++|+++|++|    |       .|..+.+..    ++|||||+|.+.++|.+|+ .|||..|.|+.|
T Consensus         6 ~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~----~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i   80 (172)
T 2g4b_A            6 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSL   80 (172)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET----TTTEEEEEESSHHHHHHHG-GGTTCEETTEEC
T ss_pred             EEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC----CCCEEEEEeCCHHHHHHHH-HhCCcEecCcee
Confidence            89999999999999999999999    6       677776643    5899999999999999999 899999999999


Q ss_pred             EEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEe
Q 002280          621 TAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVV  700 (943)
Q Consensus       621 ~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~  700 (943)
                      .|.++.+...                     ..+..+|+|.||....+.            ++|+++|++||.|..|.|+
T Consensus        81 ~v~~~~~~~~---------------------~~~~~~l~v~nlp~~~t~------------~~l~~~f~~~G~v~~v~i~  127 (172)
T 2g4b_A           81 KIRRPHDYQP---------------------LPGAHKLFIGGLPNYLND------------DQVKELLTSFGPLKAFNLV  127 (172)
T ss_dssp             EEECCSSCCC---------------------CTTTTCEEEECCCTTCCH------------HHHHHHHHTTSCEEEEEEE
T ss_pred             eecCCcccCC---------------------CCCCCEEEEEcCCCcCCH------------HHHHHHHHhcCCceEEEEE
Confidence            9987543221                     123677999999764332            6899999999999999999


Q ss_pred             cCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          701 KYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       701 r~~-~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      .+. .|..+|||||+|.+.++|.+|+..|||..|+++.+.|..+
T Consensus       128 ~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A          128 KDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             ECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence            884 7888999999999999999999999999999999988764

>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=1.8e-22  Score=201.16  Aligned_cols=157  Identities=10%  Similarity=0.145  Sum_probs=136.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..  +..+.|+.|.|.++.+..
T Consensus         5 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~~~   82 (167)
T 2cjk_A            5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIPRD   82 (167)
T ss_dssp             EEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCCHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccchh
Confidence            8999999999999999999999999999999887  467899999999999999999984  678999999988775422


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~  708 (943)
                      .                     ..++..|+|.||....+.            ++|+++|++||.|..|.|+.+ ..|..+
T Consensus        83 ~---------------------~~~~~~l~V~nlp~~~t~------------~~l~~~F~~~G~i~~~~i~~~~~~g~~~  129 (167)
T 2cjk_A           83 E---------------------QDKTGKIFVGGIGPDVRP------------KEFEEFFSQWGTIIDAQLMLDKDTGQSR  129 (167)
T ss_dssp             H---------------------HHHCEEEEEEEECTTCCH------------HHHHHHHHTTSCCSEEECCCSSSSSTTS
T ss_pred             h---------------------ccCCCeEEECCCCCCCCH------------HHHHHHHHhCccEEEEEEEEcCCCCccc
Confidence            1                     124678999999654332            689999999999999999987 468889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||||+|.+.++|.+|++ |+|..|+++.+.|..+.
T Consensus       130 g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~  164 (167)
T 2cjk_A          130 GFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAE  164 (167)
T ss_dssp             EEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECC
T ss_pred             eEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecC
Confidence            999999999999999998 99999999999997754

>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=99.87  E-value=2.3e-21  Score=210.53  Aligned_cols=176  Identities=15%  Similarity=0.223  Sum_probs=137.6

Q ss_pred             EEEEEecCCCCCCHHHHH----HHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~----e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+    ++|+.||.|..|.|.+ ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        10 ~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   88 (282)
T 3pgw_A           10 HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   88 (282)
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC-CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEec
Confidence            399999999999999966    9999999999999876 56689999999999999999999999999999999999986


Q ss_pred             cCCCcCCC-------------------------------------------------------------CCCCCCCC---
Q 002280          627 LDGSIMDN-------------------------------------------------------------SGNPPFHG---  642 (943)
Q Consensus       627 ~~~~~~~~-------------------------------------------------------------~~~~~~~~---  642 (943)
                      ........                                                             .+..+...   
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~p~  168 (282)
T 3pgw_A           89 TDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPG  168 (282)
T ss_pred             cCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCC
Confidence            54320000                                                             00000000   


Q ss_pred             --------------------------CCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEE
Q 002280          643 --------------------------IPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKS  696 (943)
Q Consensus       643 --------------------------ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~  696 (943)
                                                ++.........++++|+|.||....+            .++|+++|++||.|+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~------------~~~l~~~F~~~G~i~~  236 (282)
T 3pgw_A          169 MIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETN------------ELMLSMLFNQFPGFKE  236 (282)
T ss_pred             CCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCC------------HHHHHHHHHhcCCeEE
Confidence                                      00000001234678899999965322            2689999999999999


Q ss_pred             EEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCceEEEEe
Q 002280          697 VNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEV  743 (943)
Q Consensus       697 V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~-~k~~~v~~~  743 (943)
                      |.|+.+.    +|||||+|.+.++|.+|+..|||..|. ++.+.|..+
T Consensus       237 v~~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          237 VRLVPGR----HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFA  280 (282)
T ss_pred             EEEecCC----CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEe
Confidence            9999653    579999999999999999999999999 988888664

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.87  E-value=1.5e-21  Score=200.83  Aligned_cols=174  Identities=15%  Similarity=0.237  Sum_probs=138.5

Q ss_pred             EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||. .+++++|+++|+.||.|..|.++.+.   +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus         5 ~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~---~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~~   81 (198)
T 1qm9_A            5 VLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNV   81 (198)
T ss_dssp             EEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC---SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCSC
T ss_pred             EEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCCc
Confidence            899999999 99999999999999999999988763   89999999999999999999999999999999999875432


Q ss_pred             cCCCCC-----------CCC---CCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCC-CeE
Q 002280          631 IMDNSG-----------NPP---FHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG-SVK  695 (943)
Q Consensus       631 ~~~~~~-----------~~~---~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG-~V~  695 (943)
                      ......           ..+   +.............|+.+|+|.||....+            .++|+++|++|| .|.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~------------~~~l~~~f~~~G~~v~  149 (198)
T 1qm9_A           82 QLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVS------------EEDLKVLFSSNGGVVK  149 (198)
T ss_dssp             CCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCC------------HHHHHHHHHHTTSCCC
T ss_pred             CCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCC------------HHHHHHHHHHcCCCce
Confidence            111100           000   00000000111235789999999965333            268999999999 999


Q ss_pred             EEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCceEEEEec
Q 002280          696 SVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEVT  744 (943)
Q Consensus       696 ~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~-~k~~~v~~~~  744 (943)
                      .|.|..+.    +|+|||+|.+.++|.+|+..|||..|+ ++.+.|..+.
T Consensus       150 ~v~i~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~  195 (198)
T 1qm9_A          150 GFKFFQKD----RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK  195 (198)
T ss_dssp             EEEESSTT----SSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEEC
T ss_pred             EEEEEeCC----CcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeec
Confidence            99996643    679999999999999999999999999 9999887753

>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=99.87  E-value=3.4e-21  Score=203.66  Aligned_cols=174  Identities=14%  Similarity=0.224  Sum_probs=138.3

Q ss_pred             EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||. .+++++|+++|+.||.|..|.|+.+.   +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        36 ~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~---~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~~~  112 (229)
T 2adc_A           36 VLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNV  112 (229)
T ss_dssp             EEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCCCC
T ss_pred             EEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC---CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCccc
Confidence            999999999 99999999999999999999998873   89999999999999999999999999999999998875432


Q ss_pred             cCCCCCC-----------CC---CCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCC-CeE
Q 002280          631 IMDNSGN-----------PP---FHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFG-SVK  695 (943)
Q Consensus       631 ~~~~~~~-----------~~---~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG-~V~  695 (943)
                      .......           .+   +.............|+.+|+|.||....+            .++|+++|++|| .|.
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t------------~~~l~~~f~~~G~~i~  180 (229)
T 2adc_A          113 QLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVS------------EEDLKVLFSSNGGVVK  180 (229)
T ss_dssp             CCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCC------------HHHHHHHHHTTSCCEE
T ss_pred             cCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCC------------HHHHHHHHHHcCCCee
Confidence            1111000           00   00000000111235689999999965333            268999999999 999


Q ss_pred             EEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccC-CCceEEEEec
Q 002280          696 SVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETN-EKGERLEEVT  744 (943)
Q Consensus       696 ~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~-~k~~~v~~~~  744 (943)
                      .|.|...    .+|||||+|.+.++|.+|+..|||..|+ ++.+.|..+.
T Consensus       181 ~v~i~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~  226 (229)
T 2adc_A          181 GFKFFQK----DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK  226 (229)
T ss_dssp             EEEECSS----STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             EEEEEEC----CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEec
Confidence            9999653    2679999999999999999999999999 9999887753

>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=99.85  E-value=9.7e-22  Score=197.78  Aligned_cols=159  Identities=14%  Similarity=0.102  Sum_probs=132.4

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEE-ecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE-VNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~-~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      ..+|||+|||..+++++|+++|+.||.+..+.+. ..++.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+.
T Consensus        13 ~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~~~   91 (175)
T 1fje_B           13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGR   91 (175)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCCS
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCCCc
Confidence            3499999999999999999999999876652221 124568999999999999999999 59999999999999987653


Q ss_pred             CCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcc
Q 002280          629 GSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNIS  708 (943)
Q Consensus       629 ~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~  708 (943)
                      ...                   ...+..+|+|.||....+.            ++|+++|++||.|..|    ...+..+
T Consensus        92 ~~~-------------------~~~~~~~l~v~nlp~~~t~------------~~l~~~F~~~g~v~~~----~~~~~~~  136 (175)
T 1fje_B           92 DSK-------------------KVRAARTLLAKNLSFNITE------------DELKEVFEDALEIRLV----SQDGKSK  136 (175)
T ss_dssp             SCS-------------------TTGGGGEEEEESCCSSCCH------------HHHHHHCTTCSEEEEE----CSSSSCC
T ss_pred             ccc-------------------ccccCCEEEEeCCCCCCCH------------HHHHHHHHhcCeEEEe----cCCCCCc
Confidence            321                   1235789999999654332            6899999999999877    5667889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||||+|.+.++|.+|+..|||..|+++.+.|..+.
T Consensus       137 g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B          137 GIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             SEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             eEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            999999999999999999999999999998887653

>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=99.85  E-value=5.9e-21  Score=205.87  Aligned_cols=151  Identities=15%  Similarity=0.144  Sum_probs=133.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSI  631 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~  631 (943)
                      +|||+|||..+|+++|+++|+.||.|..|.|.+    ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.     
T Consensus        24 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~----~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~-----   94 (261)
T 3sde_A           24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINR----DRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT-----   94 (261)
T ss_dssp             EEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC-----
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC----CCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc-----
Confidence            899999999999999999999999999999865    48999999999999999999999999999999999763     


Q ss_pred             CCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeE
Q 002280          632 MDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQ  711 (943)
Q Consensus       632 ~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~  711 (943)
                                            +..+|+|.||....+            .++|+++|++||.|..|.|+.+..|..+|||
T Consensus        95 ----------------------~~~~l~v~nl~~~~t------------~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~a  140 (261)
T 3sde_A           95 ----------------------HGAALTVKNLSPVVS------------NELLEQAFSQFGPVEKAVVVVDDRGRATGKG  140 (261)
T ss_dssp             ----------------------CSSEEEEESCCTTCC------------HHHHHHHHGGGSCEEEEEEEEETTSCEEEEE
T ss_pred             ----------------------cCCcccccCCCCCCC------------HHHHHHHHHhcCCeEEEEeeeCCCCCcCcEE
Confidence                                  245799999965333            2689999999999999999999889999999


Q ss_pred             EEEeCCHHHHHHHHHHhCC-CccC---CCceEEEEecc
Q 002280          712 ACEGNENTASAGVGQNLTN-DETN---EKGERLEEVTD  745 (943)
Q Consensus       712 FVeF~~~e~A~~Ai~~LnG-r~~~---~k~~~v~~~~~  745 (943)
                      ||+|.+.++|.+|+..||| ..+.   ++.+.|.+...
T Consensus       141 fV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~  178 (261)
T 3sde_A          141 FVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQ  178 (261)
T ss_dssp             EEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCC
T ss_pred             EEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeeccc
Confidence            9999999999999999955 4443   78888776543

>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=99.71  E-value=4.3e-17  Score=162.02  Aligned_cols=123  Identities=13%  Similarity=0.166  Sum_probs=100.0

Q ss_pred             ecCCCeeeEEeCCHHHHHHHHH-ccCC-cccc------ccccccC----------CccceeEEEEEecCCCCCCHHHHHH
Q 002280          508 QREKGQAFVEFLTAEDASAALC-CDGC-SFSG------SILKIKR----------PKEFVEVAIFIGGISRTLSSKMVME  569 (943)
Q Consensus       508 ~~skGyAFVeF~s~edA~~Al~-LnG~-~l~G------r~LkV~r----------p~d~~~~~LfV~NLp~~~teedL~e  569 (943)
                      ..++|||||+|.+.++|++|+. +++. .+.|      .......          .......+|||+|||..+++++|++
T Consensus        10 ~~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~   89 (158)
T 2kn4_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRR   89 (158)
T ss_dssp             SSCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCCCCSSCCCCCCBCCEEEEESCCTTCCHHHHHH
T ss_pred             ccccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHH
Confidence            3579999999999999999997 6652 2222      1111110          0011123999999999999999999


Q ss_pred             HHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          570 IVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       570 ~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+...
T Consensus        90 ~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A           90 VFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             HHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECCSSC
T ss_pred             HHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCCC
Confidence            9999999999999887  567899999999999999999999999999999999999976543

>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=1.9e-16  Score=147.42  Aligned_cols=90  Identities=31%  Similarity=0.334  Sum_probs=83.2

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCC---CcceeEEEEeCCHHHHHHHHHHh
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDS---NISTIQACEGNENTASAGVGQNL  728 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g---~~~G~~FVeF~~~e~A~~Ai~~L  728 (943)
                      +.||+||+|.||++++++  .++.+|++|.+||+++|++||.|++|.|+++..+   ..+|++||+|.+.++|.+|+.+|
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  5899999999999999999999999999988654   46899999999999999999999


Q ss_pred             CCCccCCCceEEEEe
Q 002280          729 TNDETNEKGERLEEV  743 (943)
Q Consensus       729 nGr~~~~k~~~v~~~  743 (943)
                      ||+.|+++.+.+...
T Consensus        80 nG~~f~GR~i~v~~~   94 (105)
T 3v4m_A           80 TGRKFANRVVVTKYC   94 (105)
T ss_dssp             TTCEETTEECEEEEE
T ss_pred             CCCEeCCCEEEEEEe
Confidence            999999999998764

>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=99.66  E-value=1.8e-16  Score=156.49  Aligned_cols=116  Identities=16%  Similarity=0.259  Sum_probs=104.0

Q ss_pred             cCCCeeeEEeCCHHHHHHHHH-c-cCCccccccccccCCccc--------------------eeEEEEEecCCCCCCHHH
Q 002280          509 REKGQAFVEFLTAEDASAALC-C-DGCSFSGSILKIKRPKEF--------------------VEVAIFIGGISRTLSSKM  566 (943)
Q Consensus       509 ~skGyAFVeF~s~edA~~Al~-L-nG~~l~Gr~LkV~rp~d~--------------------~~~~LfV~NLp~~~teed  566 (943)
                      .-+|+++|+|.+.++|.+|+. | ||..+.| .|.+......                    ...+|||+|||+.+++++
T Consensus        11 ~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~t~~~   89 (150)
T 2i2y_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTE   89 (150)
T ss_dssp             SSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSSCCCCSCSSSSTTSCEEEEESCCSCCSCHH
T ss_pred             cccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHHH
Confidence            458999999999999999998 8 9999999 8888754321                    112999999999999999


Q ss_pred             HHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          567 VMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       567 L~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      |+++|++||.|..|.|+.+   ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        90 l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  148 (150)
T 2i2y_A           90 LERAFGYYGPLRSVWVARN---PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGE  148 (150)
T ss_dssp             HHHHHHHHSCEEEEEECSS---SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCC
T ss_pred             HHHHHHhhCCEEEEEEeeC---CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCC
Confidence            9999999999999999876   7899999999999999999999999999999999998664

>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=99.60  E-value=1.6e-15  Score=143.21  Aligned_cols=87  Identities=22%  Similarity=0.138  Sum_probs=81.2

Q ss_pred             CCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCc
Q 002280          653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDE  732 (943)
Q Consensus       653 ~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~  732 (943)
                      .||+||+|.|||+++++  .+++++.+|.+||+++|++||.|++|.|+++.   .+|++||+|.+.++|.+|+..|||++
T Consensus         5 ~ps~vv~L~Nm~~~~e~--~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~---~~G~~fV~f~~~e~A~~Ai~~lnG~~   79 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTE--EEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS---AQGNVYVKCPSIAAAIAAVNALHGRW   79 (114)
T ss_dssp             CCCSEEEEESSCCTTTC--CSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC---TTCCEEEECSSHHHHHHHHHHHTTCE
T ss_pred             CCCcEEEEECCCChHHc--cChhHHHHHHHHHHHHHhccCCEEEEEEecCC---CcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            57999999999999998  59999999999999999999999999998864   48999999999999999999999999


Q ss_pred             cCCCceEEEEec
Q 002280          733 TNEKGERLEEVT  744 (943)
Q Consensus       733 ~~~k~~~v~~~~  744 (943)
                      |+++.+.+....
T Consensus        80 f~GR~i~v~~~~   91 (114)
T 3s6e_A           80 FAGKMITAAYVP   91 (114)
T ss_dssp             ETTEECEEEEEC
T ss_pred             ECCEEEEEEEEc
Confidence            999999987763

>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=99.59  E-value=1.3e-15  Score=143.78  Aligned_cols=95  Identities=21%  Similarity=0.205  Sum_probs=63.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||+.+|+++|+++|.+||.+..+.      .+.  ..+.++|||||+|.+.++|..||. |||..|.|++|.
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------VVC--DENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF   76 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEE------EEE--ETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEE------Eee--cCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            45899999999999999999999998533211      111  124578999999999999999998 999999999999


Q ss_pred             ccCCccce------------eEEEEEecCCCCCCHH
Q 002280          542 IKRPKEFV------------EVAIFIGGISRTLSSK  565 (943)
Q Consensus       542 V~rp~d~~------------~~~LfV~NLp~~~tee  565 (943)
                      |.+.....            ..+|||+|||+.+|++
T Consensus        77 V~~a~~~~~~~~~~~~~~~~~~~lyv~Nl~~~~T~~  112 (115)
T 4f25_A           77 VGRFKSRKEREAELGARAKEFTNVYIKNFGPGSTRA  112 (115)
T ss_dssp             EEESSCCCC---------------------------
T ss_pred             EEECCCccccccccccccCCCCceEeCCCCCCcccc
Confidence            98543211            1179999999999876

>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=99.57  E-value=1e-14  Score=144.86  Aligned_cols=148  Identities=12%  Similarity=0.063  Sum_probs=108.7

Q ss_pred             EEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEE
Q 002280          579 AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVL  658 (943)
Q Consensus       579 ~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL  658 (943)
                      .+.|..+...++|||||+|.+.++|.+|+..+++....+..+.+..+..........        ..........+..+|
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            456777777789999999999999999999888754433333332211100000000        000011123457899


Q ss_pred             EeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCc
Q 002280          659 KLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTNDETNEKG  737 (943)
Q Consensus       659 ~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~  737 (943)
                      +|.||....+            .++|+++|++||.|+.|.|+.+ ..|..+|||||+|.+.++|.+|+..|||..|+++.
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 KVDNLTYRTS------------PDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRE  141 (158)
T ss_dssp             EEESCCTTCC------------HHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSE
T ss_pred             EEeCCCCCCC------------HHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            9999965333            2689999999999999999988 47889999999999999999999999999999999


Q ss_pred             eEEEEeccc
Q 002280          738 ERLEEVTDH  746 (943)
Q Consensus       738 ~~v~~~~~~  746 (943)
                      +.|..+...
T Consensus       142 l~v~~a~~~  150 (158)
T 2kn4_A          142 LRVQMARYG  150 (158)
T ss_dssp             EEEEEECCS
T ss_pred             EEEEECCCC
Confidence            999887654

>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=99.57  E-value=4.7e-15  Score=139.91  Aligned_cols=78  Identities=18%  Similarity=0.351  Sum_probs=74.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|+|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus         7 ~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~~   84 (115)
T 4f25_A            7 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK   84 (115)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCCC
T ss_pred             EEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCcc
Confidence            899999999999999999999999999999999987789999999999999999999999999999999999986643

>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=6e-15  Score=135.62  Aligned_cols=78  Identities=15%  Similarity=0.313  Sum_probs=73.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      ..+|||+|||..+|+++|+++|++||.|..|.|+++  ++.++|||||+|.+.++|.+|+..|||..|.|++|.|.+|.|
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP   98 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            348999999999999999999999999999999987  456789999999999999999999999999999999999976

>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=99.51  E-value=1.6e-14  Score=137.15  Aligned_cols=84  Identities=19%  Similarity=0.256  Sum_probs=74.8

Q ss_pred             CCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCC-----CCcceeEEEEeCCHHHHHHHHHH
Q 002280          653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-----SNISTIQACEGNENTASAGVGQN  727 (943)
Q Consensus       653 ~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~-----g~~~G~~FVeF~~~e~A~~Ai~~  727 (943)
                      .|++||+|.||+++++|.       .+|.+||+++|++||.|++|.|+++..     +..+|++||+|.+.++|.+|+.+
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            489999999999998872       246789999999999999999998743     45679999999999999999999


Q ss_pred             hCCCccCCCceEEEEe
Q 002280          728 LTNDETNEKGERLEEV  743 (943)
Q Consensus       728 LnGr~~~~k~~~v~~~  743 (943)
                      |||++|+++.+.+...
T Consensus        91 LnGr~f~GR~i~v~~~  106 (118)
T 3ue2_A           91 LNGRWFAGRKVVAEVY  106 (118)
T ss_dssp             HTTCEETTEECEEEEE
T ss_pred             HCCCEECCcEEEEEEc
Confidence            9999999999998765

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.51  E-value=3.3e-14  Score=132.29  Aligned_cols=85  Identities=15%  Similarity=0.168  Sum_probs=74.7

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCC--CCCcceeEEEEeCCHHHHHHHHHHhC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYG--DSNISTIQACEGNENTASAGVGQNLT  729 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~--~g~~~G~~FVeF~~~e~A~~Ai~~Ln  729 (943)
                      ..|++||+|.||++++++.       .++.+||+++|++||.|++|.|+++.  .+..+|||||+|.+.++|.+|+.+||
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 KCPTKVVLLRNMVGAGEVD-------EDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLN   77 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC----------CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEEcCCChHHhh-------HHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHC
Confidence            4689999999999988872       24568999999999999999999874  35789999999999999999999999


Q ss_pred             CCccCCCceEEEEe
Q 002280          730 NDETNEKGERLEEV  743 (943)
Q Consensus       730 Gr~~~~k~~~v~~~  743 (943)
                      |++|+++.+.+...
T Consensus        78 G~~~~Gr~i~v~~a   91 (105)
T 2pe8_A           78 GRYFGGRVVKACFY   91 (105)
T ss_dssp             TCEETTEECEEEEC
T ss_pred             CCEECCcEEEEEEc
Confidence            99999999988765

>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=99.51  E-value=8.6e-14  Score=137.15  Aligned_cols=141  Identities=16%  Similarity=0.059  Sum_probs=108.3

Q ss_pred             EEecCCCCCCEEEEeecChhHHHHHHHHh-CCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEe
Q 002280          582 FEVNEDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKL  660 (943)
Q Consensus       582 l~~d~~~skG~aFVeF~~~e~A~kAl~~L-nG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L  660 (943)
                      |..+...-+|+++|+|.+.+.|.+|+..| ||..+.| .|.+.++............     ...........+.+.|+|
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            33444456899999999999999999999 9999999 9999876542211100000     000011122456789999


Q ss_pred             ccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEE
Q 002280          661 KNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERL  740 (943)
Q Consensus       661 ~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v  740 (943)
                      .||....+.            ++|+++|++||.|..|.|+++    .+|||||+|.+.++|..|+..|||..|+++.+.|
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 GNLGNNGNK------------TELERAFGYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRV  142 (150)
T ss_dssp             ESCCSCCSC------------HHHHHHHHHHSCEEEEEECSS----SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEE
T ss_pred             eCCCCCCCH------------HHHHHHHHhhCCEEEEEEeeC----CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            999654443            689999999999999999986    5789999999999999999999999999999999


Q ss_pred             EEec
Q 002280          741 EEVT  744 (943)
Q Consensus       741 ~~~~  744 (943)
                      ..+.
T Consensus       143 ~~a~  146 (150)
T 2i2y_A          143 ELSN  146 (150)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            7764

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.51  E-value=1.4e-14  Score=140.82  Aligned_cols=119  Identities=12%  Similarity=0.145  Sum_probs=77.4

Q ss_pred             CeeeEEeCCHHHHHHHHH-ccCCcccccc-ccccCCc--cceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--
Q 002280          512 GQAFVEFLTAEDASAALC-CDGCSFSGSI-LKIKRPK--EFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--  585 (943)
Q Consensus       512 GyAFVeF~s~edA~~Al~-LnG~~l~Gr~-LkV~rp~--d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--  585 (943)
                      -|+|++|.+...+..||+ ++|-...|+. +...+|.  .....+|||+|||..+++++|+++|++||.|..|.|+.+  
T Consensus         5 ~~~~~~~~~~~~~~~a~~~~~g~~~~g~~~~~~~~~~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~   84 (135)
T 2lea_A            5 HHHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRY   84 (135)
T ss_dssp             ------------------------------CCSCCSCSSGGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSS
T ss_pred             ccccccccCCCchhhhhhhccCCCCCCCCCCCcCCCCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCC
Confidence            468999999999999999 8886555543 3333322  222349999999999999999999999999999999877  


Q ss_pred             CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          586 EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       586 ~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        85 ~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~~~  129 (135)
T 2lea_A           85 TKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  129 (135)
T ss_dssp             SSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCCCC
T ss_pred             CCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            456799999999999999999999999999999999999876443

>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=2e-14  Score=166.08  Aligned_cols=79  Identities=18%  Similarity=0.259  Sum_probs=73.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+|+++|.++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+..
T Consensus       104 ~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~~~  183 (437)
T 3pgw_S          104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRT  183 (437)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCCCC
Confidence            9999999999999999999999999999999887  46679999999999999999999999999999999999997644


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus       184 ~  184 (437)
T 3pgw_S          184 V  184 (437)
T ss_pred             C
Confidence            3

>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=99.47  E-value=2.5e-13  Score=124.93  Aligned_cols=80  Identities=21%  Similarity=0.480  Sum_probs=75.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+...++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   95 (103)
T 2cqi_A           16 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPSS   95 (103)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCTTC
T ss_pred             CEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCCCcc
Confidence            39999999999999999999999999999999998777899999999999999999999999999999999999977543

>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=99.46  E-value=1e-13  Score=123.19  Aligned_cols=84  Identities=36%  Similarity=0.671  Sum_probs=73.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ++.++|||+|||+.+|+++|+++|++||.+.|+...+. ..|.++.+..++|||||+|.+.++|..|+.|||..|.|+.|
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            45789999999999999999999999965555433332 36788888889999999999999999999999999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      +|.+|
T Consensus        83 ~V~rp   87 (87)
T 2hzc_A           83 KIRRP   87 (87)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            99876

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

Probab=99.46  E-value=4.5e-14  Score=127.66  Aligned_cols=78  Identities=10%  Similarity=0.148  Sum_probs=71.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC-CeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHh-CCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG-~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~L-nG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+|+++|+++|++|| .|..|+|+++  ++.++|||||+|.+.++|.+|+..| ++..|.|++|.|.+|.|
T Consensus         3 ~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~~   82 (91)
T 2lxi_A            3 IVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDP   82 (91)
T ss_dssp             EEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcCC
Confidence            799999999999999999999999 8999999887  4678999999999999999999987 46789999999999876


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus        83 ~~   84 (91)
T 2lxi_A           83 KP   84 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=7.1e-14  Score=131.31  Aligned_cols=100  Identities=15%  Similarity=0.176  Sum_probs=83.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeee---eecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV---IQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~---~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ...++|||+|||+.+|+++|+++|..||.+            ..+.   .+.++|||||+|.+.++|..|+. |||..|.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v------------~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   73 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPI------------RQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVS   73 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCE------------EEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456899999999999999999999999843            3332   25678999999999999999999 9999999


Q ss_pred             cccccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCC
Q 002280          537 GSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP  576 (943)
Q Consensus       537 Gr~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~  576 (943)
                      |+.|.|........    ..+++...++++|.++|++||.
T Consensus        74 g~~l~v~~a~~~~~----~~~~~~~~~~~~l~~~~~~~g~  109 (115)
T 3lqv_A           74 NRYLVVLYYNANRA----FQKMDTKKKEEQLKLLKEKYGI  109 (115)
T ss_dssp             SCBCEEEECCHHHH----TTTSCHHHHHHHHHHHHHHHCC
T ss_pred             CeEEEEEEecCChh----hhhhhHhHhHHHHHHHHHHhCC
Confidence            99999986553211    1577788889999999999984

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.45  E-value=1.7e-13  Score=128.38  Aligned_cols=77  Identities=8%  Similarity=0.166  Sum_probs=72.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|...
T Consensus         8 ~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~~~   86 (110)
T 3s8s_A            8 EVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKG   86 (110)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSTT
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            89999999999999999999999999999999884  567999999999999999999999999999999999988543

>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=2.4e-13  Score=119.71  Aligned_cols=77  Identities=14%  Similarity=0.241  Sum_probs=72.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus         3 ~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            3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAKL   81 (83)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCcC
Confidence            7999999999999999999999999999999887  4556899999999999999999999999999999999998664

>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=99.45  E-value=4.2e-13  Score=123.45  Aligned_cols=80  Identities=15%  Similarity=0.213  Sum_probs=75.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   95 (103)
T 2cq3_A           16 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARVM   95 (103)
T ss_dssp             CEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcccCCC
Confidence            39999999999999999999999999999999998777899999999999999999999999999999999999977544

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

Probab=99.44  E-value=1e-13  Score=126.56  Aligned_cols=78  Identities=13%  Similarity=0.222  Sum_probs=70.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCC--eeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCC----ccCCeEEE
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGP--LKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGL----KVGGQVLT  621 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~--I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~----~~~gr~L~  621 (943)
                      ..+|||+|||+.+|+++|+++|++||.  +..|+|++|  ++.++|||||+|.+.++|.+|+..|||.    .|.|++|.
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~   88 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIG   88 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEE
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEE
Confidence            349999999999999999999999995  568888887  4678999999999999999999999997    48999999


Q ss_pred             EEEccc
Q 002280          622 AVQAVL  627 (943)
Q Consensus       622 V~~A~~  627 (943)
                      |.+|..
T Consensus        89 V~~Aks   94 (95)
T 2lkz_A           89 VDFAKS   94 (95)
T ss_dssp             EEECCC
T ss_pred             EEEccC
Confidence            999853

>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=99.44  E-value=3e-13  Score=120.15  Aligned_cols=76  Identities=16%  Similarity=0.365  Sum_probs=71.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|..|.++.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
T Consensus         8 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   85 (87)
T 3bs9_A            8 HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR   85 (87)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC-
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecCC
Confidence            8999999999999999999999999999999887  456789999999999999999999999999999999999865

>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=7.3e-14  Score=125.62  Aligned_cols=78  Identities=17%  Similarity=0.183  Sum_probs=68.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC--CeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG--~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||  .|..+.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus         3 ~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~~   82 (90)
T 3p5t_L            3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSNK   82 (90)
T ss_dssp             -CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC--
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECCC
Confidence            689999999999999999999999  9999999987  456799999999999999999999999999999999998866


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus        83 ~~   84 (90)
T 3p5t_L           83 LE   84 (90)
T ss_dssp             --
T ss_pred             Cc
Confidence            44

>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=99.43  E-value=4e-13  Score=122.34  Aligned_cols=78  Identities=18%  Similarity=0.205  Sum_probs=73.0

Q ss_pred             EEEEEecCCCCCCHHHHH----HHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~----e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+    ++|++||.|..|.|+.+... +|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.
T Consensus        10 ~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   88 (96)
T 2dgx_A           10 ADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   88 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC-CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            389999999999999999    99999999999999988666 9999999999999999999999999999999999986


Q ss_pred             cCC
Q 002280          627 LDG  629 (943)
Q Consensus       627 ~~~  629 (943)
                      +..
T Consensus        89 ~~~   91 (96)
T 2dgx_A           89 GAS   91 (96)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            643

>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=99.43  E-value=8.3e-14  Score=128.01  Aligned_cols=78  Identities=21%  Similarity=0.270  Sum_probs=66.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +..+|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+|+. |||..|.|++|
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 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESA------KLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTI   91 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEe------EeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            45689999999999999999999999864332      133445568899999999999999999998 99999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      +|.++
T Consensus        92 ~V~~A   96 (99)
T 4fxv_A           92 KVSYA   96 (99)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99754

>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=99.43  E-value=6.3e-13  Score=121.27  Aligned_cols=80  Identities=21%  Similarity=0.407  Sum_probs=74.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus         9 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   88 (99)
T 1whw_A            9 GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIK   88 (99)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            48999999999999999999999999999999887  4567899999999999999999999999999999999999775


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        89 ~~   90 (99)
T 1whw_A           89 KE   90 (99)
T ss_dssp             ST
T ss_pred             cc
Confidence            54

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.42  E-value=8.6e-13  Score=123.86  Aligned_cols=81  Identities=15%  Similarity=0.332  Sum_probs=74.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   95 (115)
T 2dgo_A           16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATRK   95 (115)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSCC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence            39999999999999999999999999999999987  4566899999999999999999999999999999999999775


Q ss_pred             CCc
Q 002280          629 GSI  631 (943)
Q Consensus       629 ~~~  631 (943)
                      ...
T Consensus        96 ~~~   98 (115)
T 2dgo_A           96 PPA   98 (115)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

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

Probab=99.42  E-value=3.2e-13  Score=120.58  Aligned_cols=72  Identities=15%  Similarity=0.254  Sum_probs=68.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      ..|||+||++.+|+++|+++|.+||+|..+++..    ++|||||+|.+.++|.+|+..|||..+.|++|.|..|.
T Consensus         8 ~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            8 SWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             ceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            3799999999999999999999999999999865    69999999999999999999999999999999999873

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.42  E-value=3.5e-13  Score=121.20  Aligned_cols=79  Identities=15%  Similarity=0.291  Sum_probs=74.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|..+++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus         9 ~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~   87 (92)
T 2dgv_A            9 CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRNAS   87 (92)
T ss_dssp             CEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSCCS
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCCC
Confidence            3899999999999999999999999999999998877789999999999999999999999999999999999986644

>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=99.41  E-value=5.4e-13  Score=121.21  Aligned_cols=79  Identities=19%  Similarity=0.408  Sum_probs=73.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus         4 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~   83 (96)
T 2x1f_A            4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNSD   83 (96)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSS
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCCCC
Confidence            79999999999999999999999999999998873  5679999999999999999999999999999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        84 ~   84 (96)
T 2x1f_A           84 I   84 (96)
T ss_dssp             G
T ss_pred             C
Confidence            3

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

Probab=99.41  E-value=3.3e-13  Score=120.49  Aligned_cols=71  Identities=18%  Similarity=0.264  Sum_probs=66.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      +.-|||+||++.+||++|+++|.+||            +|.++.+..++|||||+|.+.++|..|+. |||..|.|++|+
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            55799999999999999999999998            77888888899999999999999999999 999999999999


Q ss_pred             ccCC
Q 002280          542 IKRP  545 (943)
Q Consensus       542 V~rp  545 (943)
                      |..+
T Consensus        75 V~~A   78 (89)
T 2wbr_A           75 AESP   78 (89)
T ss_dssp             EECC
T ss_pred             EEEC
Confidence            8744

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.41  E-value=8.3e-13  Score=119.42  Aligned_cols=79  Identities=16%  Similarity=0.365  Sum_probs=73.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus         7 ~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~   86 (95)
T 2dnz_A            7 GLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTERL   86 (95)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccccc
Confidence            8999999999999999999999999999999887  45679999999999999999999999999999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        87 ~   87 (95)
T 2dnz_A           87 D   87 (95)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=4.4e-13  Score=123.35  Aligned_cols=80  Identities=19%  Similarity=0.276  Sum_probs=74.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   95 (103)
T 2cq0_A           16 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKPS   95 (103)
T ss_dssp             EEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECCCC
Confidence            49999999999999999999999999999999887  4567899999999999999999999999999999999999765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        96 ~~   97 (103)
T 2cq0_A           96 TN   97 (103)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.41  E-value=4.2e-13  Score=134.58  Aligned_cols=115  Identities=19%  Similarity=0.318  Sum_probs=74.0

Q ss_pred             EEeCCHHHHHHHHH-ccCCccc--cccccccCC------------------------ccceeEEEEEecCCCCCCHHHHH
Q 002280          516 VEFLTAEDASAALC-CDGCSFS--GSILKIKRP------------------------KEFVEVAIFIGGISRTLSSKMVM  568 (943)
Q Consensus       516 VeF~s~edA~~Al~-LnG~~l~--Gr~LkV~rp------------------------~d~~~~~LfV~NLp~~~teedL~  568 (943)
                      .+|.+.++|+.|+. |++....  |+.+.....                        ......+|||+|||..+++++|.
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            78889999999988 8875543  444433210                        00111289999999999999999


Q ss_pred             HHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          569 EIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       569 e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      ++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+...
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            99999999999999887  455689999999999999999999999999999999999976543

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.41  E-value=1.7e-13  Score=125.90  Aligned_cols=76  Identities=16%  Similarity=0.192  Sum_probs=71.9

Q ss_pred             EEEEecCCC------CCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCC-eEEEE
Q 002280          552 AIFIGGISR------TLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-QVLTA  622 (943)
Q Consensus       552 ~LfV~NLp~------~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g-r~L~V  622 (943)
                      +|||+|||.      .+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.| +.|.|
T Consensus         8 ~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V   87 (100)
T 3ns6_A            8 YIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFL   87 (100)
T ss_dssp             EEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEE
T ss_pred             EEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEE
Confidence            899999999      99999999999999999999998884  5679999999999999999999999999999 99999


Q ss_pred             EEccc
Q 002280          623 VQAVL  627 (943)
Q Consensus       623 ~~A~~  627 (943)
                      .+|.+
T Consensus        88 ~~a~~   92 (100)
T 3ns6_A           88 YTMKD   92 (100)
T ss_dssp             EESHH
T ss_pred             EECch
Confidence            99865

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.41  E-value=4.5e-13  Score=123.27  Aligned_cols=80  Identities=14%  Similarity=0.262  Sum_probs=74.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~~   95 (103)
T 2d9p_A           16 VNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRKEE   95 (103)
T ss_dssp             CCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeccccc
Confidence            39999999999999999999999999999999988667799999999999999999999999999999999999976544

>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=99.41  E-value=4.8e-13  Score=118.35  Aligned_cols=74  Identities=18%  Similarity=0.382  Sum_probs=69.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|
T Consensus         9 ~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            9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             EEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            8999999999999999999999999999999887  3456999999999999999999999999999999999986

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=5.5e-13  Score=120.87  Aligned_cols=79  Identities=23%  Similarity=0.370  Sum_probs=73.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEE-EEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAY-HFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v-~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..+ .|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus         7 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   86 (96)
T 1x5t_A            7 GIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKK   86 (96)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeccc
Confidence            89999999999999999999999999999 98886  4567999999999999999999999999999999999999765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        87 ~~   88 (96)
T 1x5t_A           87 DS   88 (96)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.40  E-value=5.6e-13  Score=118.59  Aligned_cols=77  Identities=25%  Similarity=0.483  Sum_probs=71.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC--C-CCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--H-EEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~--~-skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..+.|+.+..  . ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus         6 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~   85 (88)
T 4a8x_A            6 KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAVLAP   85 (88)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEECCCC
Confidence            899999999999999999999999999999988753  2 7899999999999999999999999999999999998664

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.40  E-value=5.9e-13  Score=121.80  Aligned_cols=79  Identities=18%  Similarity=0.353  Sum_probs=73.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        18 ~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   97 (100)
T 2do4_A           18 HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISNSGP   97 (100)
T ss_dssp             SCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCCCS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCCC
Confidence            389999999999999999999999999999998874 5568999999999999999999999999999999999987644

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=5.1e-13  Score=124.71  Aligned_cols=77  Identities=16%  Similarity=0.249  Sum_probs=73.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        31 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~  107 (109)
T 2err_A           31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR  107 (109)
T ss_dssp             EEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECCCS
T ss_pred             EEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            99999999999999999999999999999999887778999999999999999999999999999999999998653

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=7.6e-13  Score=121.41  Aligned_cols=79  Identities=16%  Similarity=0.322  Sum_probs=73.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        14 ~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   93 (102)
T 1x5s_A           14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSS   93 (102)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCC
Confidence            9999999999999999999999999999999887  45679999999999999999999999999999999999997754


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        94 ~   94 (102)
T 1x5s_A           94 D   94 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=6e-13  Score=122.99  Aligned_cols=79  Identities=19%  Similarity=0.386  Sum_probs=73.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        24 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~  103 (106)
T 1p27_B           24 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVR  103 (106)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESEES
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeecCC
Confidence            389999999999999999999999999999998874  556899999999999999999999999999999999998764


Q ss_pred             C
Q 002280          629 G  629 (943)
Q Consensus       629 ~  629 (943)
                      .
T Consensus       104 ~  104 (106)
T 1p27_B          104 G  104 (106)
T ss_dssp             S
T ss_pred             C
Confidence            3

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=6e-13  Score=122.11  Aligned_cols=79  Identities=16%  Similarity=0.317  Sum_probs=73.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        14 ~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~   93 (102)
T 2cqb_A           14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPMR   93 (102)
T ss_dssp             CEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCCCCC
Confidence            8999999999999999999999999999999877  45679999999999999999999999999999999999997754


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        94 ~   94 (102)
T 2cqb_A           94 I   94 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.40  E-value=5.6e-13  Score=121.37  Aligned_cols=79  Identities=18%  Similarity=0.291  Sum_probs=72.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+..     .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus         7 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (98)
T 2cpf_A            7 GLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   86 (98)
T ss_dssp             CEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Confidence            899999999999999999999999999999987643     568999999999999999999999999999999999987


Q ss_pred             cCCC
Q 002280          627 LDGS  630 (943)
Q Consensus       627 ~~~~  630 (943)
                      +...
T Consensus        87 ~~~~   90 (98)
T 2cpf_A           87 RATK   90 (98)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            6543

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=6.2e-13  Score=122.34  Aligned_cols=80  Identities=14%  Similarity=0.228  Sum_probs=73.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        14 ~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   93 (103)
T 2dnm_A           14 ITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVARYG   93 (103)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECSSC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECCcC
Confidence            399999999999999999999999999999998873  567899999999999999999999999999999999999764


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        94 ~~   95 (103)
T 2dnm_A           94 RR   95 (103)
T ss_dssp             CS
T ss_pred             CC
Confidence            43

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.40  E-value=7.4e-13  Score=122.44  Aligned_cols=80  Identities=18%  Similarity=0.279  Sum_probs=74.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHh-CCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~L-nG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+   ++.++|||||+|.+.++|.+|+..| ||..|.|+.|.|.+|.
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a~   95 (107)
T 2cph_A           16 SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   95 (107)
T ss_dssp             CCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeCC
Confidence            39999999999999999999999999999999887   5677999999999999999999999 9999999999999997


Q ss_pred             cCCC
Q 002280          627 LDGS  630 (943)
Q Consensus       627 ~~~~  630 (943)
                      +...
T Consensus        96 ~~~~   99 (107)
T 2cph_A           96 SEVT   99 (107)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            7543

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=9.3e-13  Score=120.24  Aligned_cols=79  Identities=19%  Similarity=0.287  Sum_probs=73.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+. |||..|.|+.|.|.++.+.
T Consensus        11 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a~~~   89 (99)
T 2dgs_A           11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRAEPR   89 (99)
T ss_dssp             CEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEECCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEECCCC
Confidence            39999999999999999999999999999999887  45679999999999999999998 9999999999999999765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        90 ~~   91 (99)
T 2dgs_A           90 DS   91 (99)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

>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=99.40  E-value=9.9e-13  Score=117.33  Aligned_cols=76  Identities=13%  Similarity=0.295  Sum_probs=71.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+.
T Consensus         8 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~~   85 (89)
T 3ucg_A            8 SIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRTN   85 (89)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTTT
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccCC
Confidence            8999999999999999999999999999999987  4567999999999999999999 99999999999999988653

>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=99.40  E-value=7.6e-13  Score=122.05  Aligned_cols=79  Identities=18%  Similarity=0.386  Sum_probs=74.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        17 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   96 (105)
T 1x5u_A           17 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAHN   96 (105)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTTTS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCC
Confidence            9999999999999999999999999999999887  45679999999999999999999999999999999999997755


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        97 ~   97 (105)
T 1x5u_A           97 K   97 (105)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.40  E-value=1.1e-12  Score=124.02  Aligned_cols=80  Identities=23%  Similarity=0.371  Sum_probs=74.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus         8 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~   87 (116)
T 2fy1_A            8 GKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKKPS   87 (116)
T ss_dssp             CEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCCSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCCC
Confidence            38999999999999999999999999999999887 46678999999999999999999999999999999999997655


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        88 ~   88 (116)
T 2fy1_A           88 F   88 (116)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.39  E-value=8.5e-13  Score=121.74  Aligned_cols=80  Identities=20%  Similarity=0.334  Sum_probs=73.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCC---eEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG---QVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g---r~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||..|.|   +.|.|.+|.
T Consensus        16 ~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a~   95 (105)
T 2dnh_A           16 RKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFAD   95 (105)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEESC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEECc
Confidence            39999999999999999999999999999999887 45568999999999999999999999999988   999999997


Q ss_pred             cCCC
Q 002280          627 LDGS  630 (943)
Q Consensus       627 ~~~~  630 (943)
                      +...
T Consensus        96 ~~~~   99 (105)
T 2dnh_A           96 TDKE   99 (105)
T ss_dssp             SSCC
T ss_pred             cCcc
Confidence            6544

>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=99.39  E-value=6.1e-13  Score=123.43  Aligned_cols=88  Identities=20%  Similarity=0.256  Sum_probs=73.3

Q ss_pred             ceEEEeccCC-CcCCCCC--------CCh----HHHHHHHHHHHHHh-cCCCCeEEEEEecCCCCCcceeEEEEeCCHHH
Q 002280          655 TEVLKLKNVF-NPEGFSS--------LSE----LEVEEVLEDVRLEC-ARFGSVKSVNVVKYGDSNISTIQACEGNENTA  720 (943)
Q Consensus       655 s~vL~L~Nlv-~~~~l~~--------i~~----~~~~ei~eDlre~f-skFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~  720 (943)
                      ++||+|.||+ +|.....        +++    +.|.++.+||+++| ++||.|++|.|+++..+..+|||||+|.+.++
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 4654310        012    34567889999999 99999999999998888889999999999999


Q ss_pred             HHHHHHHhCCCccCCCceEEEE
Q 002280          721 SAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       721 A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      |.+|+.+|||+.|+++.+.+..
T Consensus        81 A~~A~~~lng~~~~Gr~i~v~~  102 (104)
T 1jmt_A           81 AEKAVIDLNNRWFNGQPIHAEL  102 (104)
T ss_dssp             HHHHHHHHTTCEETTEECCEEE
T ss_pred             HHHHHHHHCCCEECCEEEEEEE
Confidence            9999999999999999988754

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

Probab=99.39  E-value=3.1e-13  Score=122.09  Aligned_cols=77  Identities=18%  Similarity=0.167  Sum_probs=65.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhh-hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c-cCCcccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFL-LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSGSI  539 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G-~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L-nG~~l~Gr~  539 (943)
                      +++|||+|||+.+|+++|+++|++|| .+..      ...+.+..++.++|||||+|.+.++|.+||+ + +++.|.|++
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 SNIVMLRMLPQAATEDDIRGQLQSHGVQARE------VRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQK   74 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSB------CCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEE------EEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEE
Confidence            46899999999999999999999998 3322      2245666789999999999999999999998 6 457899999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|...
T Consensus        75 i~V~~a   80 (91)
T 2lxi_A           75 VSMHYS   80 (91)
T ss_dssp             EEEECC
T ss_pred             EEEEEc
Confidence            999854

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=8.8e-13  Score=122.40  Aligned_cols=76  Identities=21%  Similarity=0.309  Sum_probs=66.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-cc--CCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-Ln--G~~l~  536 (943)
                      ..+..+|||+|||+.+|+++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. |+  +..|.
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG------------~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~   80 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFG------------KVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLR   80 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHC------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC------------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            45678999999999999999999999998            45666666679999999999999999999 76  47899


Q ss_pred             cccccccCCcc
Q 002280          537 GSILKIKRPKE  547 (943)
Q Consensus       537 Gr~LkV~rp~d  547 (943)
                      |++|.|.+.+.
T Consensus        81 Gr~l~V~~A~~   91 (105)
T 1sjq_A           81 GQPIYIQFSNH   91 (105)
T ss_dssp             TEECCBCCCSS
T ss_pred             CEEEEEEEcCC
Confidence            99999987553

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=6.1e-13  Score=123.46  Aligned_cols=77  Identities=14%  Similarity=0.101  Sum_probs=70.0

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCC--CccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG--~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||+.+++++|+++|++||.|..|.|+++    +|||||+|.+.++|.+|+..|++  ..|.|++|.|.+|.+.
T Consensus        17 ~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~   92 (105)
T 1sjq_A           17 RVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHK   92 (105)
T ss_dssp             CEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCC
Confidence            39999999999999999999999999999999874    89999999999999999998864  7899999999998765


Q ss_pred             CCc
Q 002280          629 GSI  631 (943)
Q Consensus       629 ~~~  631 (943)
                      ...
T Consensus        93 ~~~   95 (105)
T 1sjq_A           93 ELK   95 (105)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            443

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.39  E-value=7.9e-13  Score=119.45  Aligned_cols=76  Identities=14%  Similarity=0.252  Sum_probs=71.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
T Consensus        17 ~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   94 (95)
T 2cqc_A           17 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPSS   94 (95)
T ss_dssp             CEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCSC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecCC
Confidence            89999999999999999999999999999998874  45689999999999999999999999999999999998743

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

Probab=99.39  E-value=2e-13  Score=124.63  Aligned_cols=83  Identities=20%  Similarity=0.270  Sum_probs=68.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC----c
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC----S  534 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~----~  534 (943)
                      .....||||+|||+.+|+++|+++|++||.+. +..+   ..+.+..++.++|||||+|.+.++|..||. |||.    .
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            34567999999999999999999999998411 1112   244566789999999999999999999999 9996    5


Q ss_pred             cccccccccCCc
Q 002280          535 FSGSILKIKRPK  546 (943)
Q Consensus       535 l~Gr~LkV~rp~  546 (943)
                      |.|++|.|..++
T Consensus        82 i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           82 IDGKTIGVDFAK   93 (95)
T ss_dssp             ETTEEEEEEECC
T ss_pred             ECCEEEEEEEcc
Confidence            899999998655

>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=99.38  E-value=9.7e-13  Score=122.49  Aligned_cols=80  Identities=21%  Similarity=0.403  Sum_probs=73.8

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      ..+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        26 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  105 (110)
T 1oo0_B           26 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV  105 (110)
T ss_dssp             BEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEccc
Confidence            349999999999999999999999999999999877  456789999999999999999999999999999999999876


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus       106 ~~  107 (110)
T 1oo0_B          106 KG  107 (110)
T ss_dssp             SS
T ss_pred             CC
Confidence            44

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

Probab=99.38  E-value=8e-13  Score=121.14  Aligned_cols=76  Identities=18%  Similarity=0.323  Sum_probs=71.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.++.+   ++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus         2 ~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            2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN---PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             EEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS---SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC---CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            6999999999999999999999999999999877   799999999999999999999999999999999999977543

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

Probab=99.38  E-value=2.9e-13  Score=124.05  Aligned_cols=84  Identities=26%  Similarity=0.305  Sum_probs=69.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec-CCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~-skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ++|||+|||+.+|+++|+++|++||.+            ..+.+.. ++|||||+|.+.++|..|+. |||..|.|+.|.
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 MKVYVGNLGTGAGKGELERAFSYYGPL------------RTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVR   68 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCC------------SEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEE
Confidence            489999999999999999999999843            3333322 69999999999999999999 999999999999


Q ss_pred             ccCCccce--------------eEEEEEecCC
Q 002280          542 IKRPKEFV--------------EVAIFIGGIS  559 (943)
Q Consensus       542 V~rp~d~~--------------~~~LfV~NLp  559 (943)
                      |.......              ..+|||+||+
T Consensus        69 V~~a~~~~~~~~~~~~~~~~~~~~~ifvg~L~  100 (101)
T 2hvz_A           69 VELSTGMPRRSRFDRPPARRKLLEVLFNGPLE  100 (101)
T ss_dssp             EEESSSCCCSSCCCSCCCSCCCCSCCCSCCCC
T ss_pred             EEEccCCCCcccCCCCCccccCCCceecCCCC
Confidence            98543211              2289999986

>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=2.5e-12  Score=122.46  Aligned_cols=79  Identities=14%  Similarity=0.222  Sum_probs=73.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|+.||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        36 ~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~  115 (124)
T 2kt5_A           36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQI  115 (124)
T ss_dssp             EEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEECCTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCCCC
Confidence            39999999999999999999999999999999887 45679999999999999999999999999999999999986644

>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=1e-12  Score=123.48  Aligned_cols=79  Identities=15%  Similarity=0.342  Sum_probs=73.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        27 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~  106 (115)
T 2cpz_A           27 NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKN  106 (115)
T ss_dssp             CEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCCSC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            89999999999999999999999999999998874  5668999999999999999999999999999999999987654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus       107 ~  107 (115)
T 2cpz_A          107 D  107 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.38  E-value=1e-12  Score=119.62  Aligned_cols=88  Identities=20%  Similarity=0.247  Sum_probs=75.3

Q ss_pred             ccccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccC-
Q 002280          538 SILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVG-  616 (943)
Q Consensus       538 r~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~-  616 (943)
                      ..+++.........+|||+|||..+++++|+++|++||.|..|.+..+    +|||||+|.+.++|.+|+..|||..|. 
T Consensus         5 ~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~   80 (97)
T 1why_A            5 SSGKIGYGKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGG   80 (97)
T ss_dssp             CCCCCCCCCCCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             ccccccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC----CCEEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            344444443333449999999999999999999999999999988753    889999999999999999999999999 


Q ss_pred             -CeEEEEEEcccCC
Q 002280          617 -GQVLTAVQAVLDG  629 (943)
Q Consensus       617 -gr~L~V~~A~~~~  629 (943)
                       |+.|.|.++.+..
T Consensus        81 ~g~~l~V~~a~~~~   94 (97)
T 1why_A           81 PDRRLRVDFAKSGP   94 (97)
T ss_dssp             SSCBCEEEECCCCC
T ss_pred             CCcEEEEEECCCCC
Confidence             9999999987643

>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=99.38  E-value=1.1e-12  Score=118.70  Aligned_cols=75  Identities=19%  Similarity=0.374  Sum_probs=70.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.
T Consensus        18 ~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           18 TVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             EEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            99999999999999999999999999999998874 4568999999999999999999999999999999999774

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.38  E-value=1e-12  Score=118.64  Aligned_cols=74  Identities=16%  Similarity=0.332  Sum_probs=70.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|
T Consensus        18 ~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             SEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            89999999999999999999999999999998873  567899999999999999999999999999999999987

>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=99.37  E-value=1.3e-12  Score=120.99  Aligned_cols=76  Identities=16%  Similarity=0.245  Sum_probs=71.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.
T Consensus        30 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           30 GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            39999999999999999999999999999999887 45568999999999999999999999999999999999874

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

Probab=99.37  E-value=7.3e-13  Score=122.72  Aligned_cols=76  Identities=14%  Similarity=0.277  Sum_probs=71.4

Q ss_pred             EEEEecCCCCC------CHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCe-EEEEEE
Q 002280          552 AIFIGGISRTL------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ-VLTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~------teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr-~L~V~~  624 (943)
                      +|||+|||..+      ++++|+++|++||.|..|.|++.++.++|||||+|.+.++|.+|+..|||..|.|+ .|.|.+
T Consensus        17 ~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~   96 (105)
T 2nlw_A           17 VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNL   96 (105)
T ss_dssp             EEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEEC
T ss_pred             EEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEE
Confidence            89999999999      78999999999999999999866778899999999999999999999999999998 999998


Q ss_pred             ccc
Q 002280          625 AVL  627 (943)
Q Consensus       625 A~~  627 (943)
                      |..
T Consensus        97 a~~   99 (105)
T 2nlw_A           97 FTD   99 (105)
T ss_dssp             SCC
T ss_pred             cch
Confidence            754

>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=99.37  E-value=5.6e-13  Score=124.76  Aligned_cols=78  Identities=22%  Similarity=0.352  Sum_probs=72.4

Q ss_pred             EEEEecCCCCCCHHHHH---HHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVM---EIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~---e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|||+|||+.+++++|+   ++|++||.|..|.|+.+..     .++|||||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus        17 ~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~   96 (111)
T 2cpi_A           17 LVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   96 (111)
T ss_dssp             CEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEE
Confidence            89999999999999999   9999999999999988754     456999999999999999999999999999999999


Q ss_pred             EcccCC
Q 002280          624 QAVLDG  629 (943)
Q Consensus       624 ~A~~~~  629 (943)
                      +|.+..
T Consensus        97 ~a~~k~  102 (111)
T 2cpi_A           97 LGTTKY  102 (111)
T ss_dssp             SCCCCS
T ss_pred             eccccc
Confidence            987654

>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=7.9e-13  Score=122.44  Aligned_cols=76  Identities=12%  Similarity=0.065  Sum_probs=70.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||+.+|+++|.++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+. ++|..|.|+.|.|.++..
T Consensus        12 ~~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           12 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHHH
T ss_pred             CEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEchH
Confidence            489999999999999999999999999999999874 5679999999999999999999 999999999999998754

>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=1.4e-12  Score=121.33  Aligned_cols=79  Identities=28%  Similarity=0.465  Sum_probs=73.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhC------CCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLN------GLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~Ln------G~~~~gr~L~V~  623 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..||      |..|.|+.|.|.
T Consensus        17 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~   96 (111)
T 1x4h_A           17 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVD   96 (111)
T ss_dssp             CEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEE
Confidence            89999999999999999999999999999998873  5679999999999999999999999      999999999999


Q ss_pred             EcccCCC
Q 002280          624 QAVLDGS  630 (943)
Q Consensus       624 ~A~~~~~  630 (943)
                      ++.+...
T Consensus        97 ~a~~~~~  103 (111)
T 1x4h_A           97 LAVTRDE  103 (111)
T ss_dssp             CCCCCCC
T ss_pred             ECCCCcc
Confidence            9876543

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

Probab=99.37  E-value=3.9e-13  Score=118.30  Aligned_cols=71  Identities=15%  Similarity=0.344  Sum_probs=66.6

Q ss_pred             EEEEecCCCCC------CHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCe-EEEE
Q 002280          552 AIFIGGISRTL------SSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQ-VLTA  622 (943)
Q Consensus       552 ~LfV~NLp~~~------teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr-~L~V  622 (943)
                      +|||+|||..+      ++++|+++|++||.|..|.|++.++.++|||||+|.+.++|.+|+..|||..|.|+ +|.|
T Consensus         3 ~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            3 VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             EEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            79999999999      77999999999999999998876778899999999999999999999999999999 8765

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.37  E-value=9e-13  Score=120.24  Aligned_cols=78  Identities=15%  Similarity=0.326  Sum_probs=72.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCee-EEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeE----EEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV----LTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~-~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~----L~V~~  624 (943)
                      +|||+|||..+++++|+++|++||.|. .|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.    |.|.+
T Consensus        11 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~   90 (99)
T 2div_A           11 SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNY   90 (99)
T ss_dssp             EEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEee
Confidence            899999999999999999999999999 99998874  567899999999999999999999999999999    99999


Q ss_pred             cccCC
Q 002280          625 AVLDG  629 (943)
Q Consensus       625 A~~~~  629 (943)
                      |.+..
T Consensus        91 a~~~~   95 (99)
T 2div_A           91 ATYSG   95 (99)
T ss_dssp             TTCCS
T ss_pred             cCCCC
Confidence            86644

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.37  E-value=1.2e-12  Score=120.01  Aligned_cols=79  Identities=23%  Similarity=0.318  Sum_probs=70.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ...++|||+|||+.+|+++|+++|..||.+..       ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.|
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            45679999999999999999999999997543       25677788999999999999999999999999999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|..+.
T Consensus        88 ~V~~a~   93 (101)
T 1fj7_A           88 KLEKPK   93 (101)
T ss_dssp             EEECCS
T ss_pred             EEEEcC
Confidence            998654

>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=5e-13  Score=115.56  Aligned_cols=73  Identities=15%  Similarity=0.310  Sum_probs=68.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+. |||..|.|+.|.|.+|
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            5899999999999999999999999999999887  45679999999999999999998 9999999999999865

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.36  E-value=1.1e-12  Score=119.76  Aligned_cols=74  Identities=18%  Similarity=0.280  Sum_probs=70.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE--------EEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~--------v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      +|||+|||..+++++|+++|++||.|..        +.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.
T Consensus        15 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~   94 (99)
T 2la6_A           15 TIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIK   94 (99)
T ss_dssp             EEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEE
Confidence            9999999999999999999999999999        999887  356789999999999999999999999999999999


Q ss_pred             EEEc
Q 002280          622 AVQA  625 (943)
Q Consensus       622 V~~A  625 (943)
                      |.+|
T Consensus        95 V~~A   98 (99)
T 2la6_A           95 VSFA   98 (99)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            9987

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.36  E-value=1.2e-12  Score=124.64  Aligned_cols=77  Identities=10%  Similarity=0.283  Sum_probs=71.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+..
T Consensus        38 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~~~  116 (124)
T 2jwn_A           38 SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRTNM  116 (124)
T ss_dssp             EEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCCCC
Confidence            9999999999999999999999999999999887  4667999999999999999999 799999999999999986543

>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=99.36  E-value=1.6e-12  Score=120.16  Aligned_cols=80  Identities=23%  Similarity=0.358  Sum_probs=73.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCcc---CCeEEEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQVLTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~---~gr~L~V~~A  625 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..+   .|+.|.|.++
T Consensus        14 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a   93 (106)
T 2dgp_A           14 IKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPA   93 (106)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEEC
Confidence            49999999999999999999999999999999887  456799999999999999999999999987   8999999999


Q ss_pred             ccCCC
Q 002280          626 VLDGS  630 (943)
Q Consensus       626 ~~~~~  630 (943)
                      .+...
T Consensus        94 ~~~~~   98 (106)
T 2dgp_A           94 DSESR   98 (106)
T ss_dssp             CCCSC
T ss_pred             Ccccc
Confidence            76543

>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=1.3e-12  Score=130.18  Aligned_cols=77  Identities=16%  Similarity=0.265  Sum_probs=72.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC--CeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG--~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||  .|..|.|+.+  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+
T Consensus        57 ~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a~~  136 (156)
T 3n9u_C           57 AVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATR  136 (156)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEECCH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEcCC
Confidence            999999999999999999999999  9999999988  566799999999999999999999999999999999999865


Q ss_pred             C
Q 002280          628 D  628 (943)
Q Consensus       628 ~  628 (943)
                      .
T Consensus       137 ~  137 (156)
T 3n9u_C          137 Q  137 (156)
T ss_dssp             H
T ss_pred             C
Confidence            3

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.36  E-value=3.3e-12  Score=119.59  Aligned_cols=78  Identities=10%  Similarity=0.125  Sum_probs=72.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++....
T Consensus        17 ~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   95 (114)
T 2do0_A           17 TVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERAL   95 (114)
T ss_dssp             CEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcccCC
Confidence            89999999999999999999999999999998874 4568999999999999999999999999999999999986543

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.36  E-value=3.9e-13  Score=125.98  Aligned_cols=79  Identities=16%  Similarity=0.147  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
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            457899999999999999999999999863332      133444568899999999999999999999 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|...
T Consensus        78 i~V~~a   83 (110)
T 3s8s_A           78 IHAQLD   83 (110)
T ss_dssp             CEEEEC
T ss_pred             EEEEEC
Confidence            998743

>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=1.1e-12  Score=122.32  Aligned_cols=78  Identities=18%  Similarity=0.430  Sum_probs=72.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        27 ~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~k  106 (108)
T 2jrs_A           27 MRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTER  106 (108)
T ss_dssp             EEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSCSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcccC
Confidence            499999999999999999999999999999998874  456899999999999999999999999999999999988653

>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=99.36  E-value=1.3e-12  Score=124.73  Aligned_cols=80  Identities=19%  Similarity=0.381  Sum_probs=74.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        23 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  102 (126)
T 3ex7_B           23 WILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVR  102 (126)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESEES
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEecCC
Confidence            39999999999999999999999999999999887  4567999999999999999999999999999999999999775


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus       103 ~~  104 (126)
T 3ex7_B          103 GP  104 (126)
T ss_dssp             SS
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=99.36  E-value=1.1e-12  Score=120.08  Aligned_cols=75  Identities=24%  Similarity=0.331  Sum_probs=66.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||..+|+++|+++|..||            .|.++.+..++|||||+|.+.++|..|+. |||..|.|+
T Consensus        24 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G------------~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   91 (101)
T 2la4_A           24 PPRVTTAYIGNIPHFATEADLIPLFQNFG------------FILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGR   91 (101)
T ss_dssp             CSSCCEEEEESCCTTCCHHHHHHHHHTTS------------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEcCCCcccCHHHHHHHHHhCC------------CEEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            34568999999999999999999999988            34556666889999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|.+.+
T Consensus        92 ~l~V~~a~   99 (101)
T 2la4_A           92 NLRTGWGK   99 (101)
T ss_dssp             ECCCCBCC
T ss_pred             EEEEEecc
Confidence            99998654

>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=99.35  E-value=1.5e-12  Score=122.00  Aligned_cols=77  Identities=16%  Similarity=0.327  Sum_probs=72.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+..
T Consensus        27 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~~~  105 (114)
T 2cq4_A           27 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQAEK  105 (114)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCCCc
Confidence            99999999999999999999999999999998874  567999999999999999999 999999999999999986643

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.35  E-value=2e-12  Score=118.84  Aligned_cols=73  Identities=16%  Similarity=0.215  Sum_probs=68.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCc--cCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLK--VGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~--~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|.++|++||.|..|.+++    .+|+|||+|.+.++|.+|+..|+|..  |.|++|.|.++.+.
T Consensus        23 ~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~----~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~~k   97 (100)
T 3r27_A           23 VVHIRGLIDGVVEADLVEALQEFGPISYVVVMP----KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQ   97 (100)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc----CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecccc
Confidence            899999999999999999999999999999875    58999999999999999999999876  78999999998653

>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=99.35  E-value=9.9e-13  Score=120.95  Aligned_cols=78  Identities=23%  Similarity=0.442  Sum_probs=72.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        10 ~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   89 (104)
T 1p1t_A           10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASEK   89 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCTT
T ss_pred             EEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCCcc
Confidence            8999999999999999999999999999999887  35568999999999999999999999999999999999987654

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

Probab=99.35  E-value=1.4e-12  Score=120.09  Aligned_cols=80  Identities=15%  Similarity=0.355  Sum_probs=73.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhh-cCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCc-cCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCA-FGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLK-VGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~-fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~-~~gr~L~V~~A~~  627 (943)
                      .+|||+|||..+++++|+++|++ ||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||.. |.|+.|.|.++.+
T Consensus        10 ~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a~~   89 (104)
T 2dhg_A           10 YSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAIP   89 (104)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBCCC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEccC
Confidence            38999999999999999999999 999999999888 45568999999999999999999999999 9999999999866


Q ss_pred             CCC
Q 002280          628 DGS  630 (943)
Q Consensus       628 ~~~  630 (943)
                      ...
T Consensus        90 ~~~   92 (104)
T 2dhg_A           90 KAS   92 (104)
T ss_dssp             CCS
T ss_pred             CCc
Confidence            543

>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=99.35  E-value=1.4e-12  Score=122.26  Aligned_cols=90  Identities=19%  Similarity=0.314  Sum_probs=79.0

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  731 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr  731 (943)
                      ..++++|+|.||+++.++. .++.+|+++.++|+++|++||.|+.|.|+..   ..+|||||+|.+.++|.+|+..|||.
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            4579999999999988763 4667899999999999999999999987543   26899999999999999999999999


Q ss_pred             ccCCCceEEEEecc
Q 002280          732 ETNEKGERLEEVTD  745 (943)
Q Consensus       732 ~~~~k~~~v~~~~~  745 (943)
                      .|+++.+.+.....
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            99999999877643

>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=1.7e-12  Score=114.90  Aligned_cols=74  Identities=20%  Similarity=0.249  Sum_probs=66.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c-cCCcccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L-nG~~l~G  537 (943)
                      ....++|||+|||+.+|+++|+++|.+||            .|..+.+..++|||||+|.+.++|..|+. | +|..+.|
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G------------~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g   76 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFG------------EIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNG   76 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTS------------CEEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETT
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCC------------CEeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECC
Confidence            35678999999999999999999999988            45666666789999999999999999999 8 9999999


Q ss_pred             ccccccCC
Q 002280          538 SILKIKRP  545 (943)
Q Consensus       538 r~LkV~rp  545 (943)
                      ++|+|.+.
T Consensus        77 ~~l~v~~a   84 (85)
T 2ytc_A           77 RRLNVKWG   84 (85)
T ss_dssp             EECCEEEC
T ss_pred             CEEEEEec
Confidence            99998754

>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=99.35  E-value=2.8e-12  Score=119.21  Aligned_cols=78  Identities=18%  Similarity=0.370  Sum_probs=71.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|..+ +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        23 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~  100 (109)
T 1x4a_A           23 CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSGR  100 (109)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC-CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcccCC
Confidence            39999999999999999999999999999998654 4478999999999999999999999999999999999986644

>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=99.35  E-value=2.4e-12  Score=119.71  Aligned_cols=75  Identities=11%  Similarity=0.069  Sum_probs=70.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCC-----eEEEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-----QVLTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g-----r~L~V~~A  625 (943)
                      .+|||+|||+.+++++|+++|++||.|..|.|+.+     |||||+|.+.++|.+||..|||..|.|     +.|.|.+|
T Consensus        16 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a   90 (108)
T 1x4c_A           16 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   90 (108)
T ss_dssp             CEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEES
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeC
Confidence            39999999999999999999999999999999875     999999999999999999999999999     99999999


Q ss_pred             ccCCC
Q 002280          626 VLDGS  630 (943)
Q Consensus       626 ~~~~~  630 (943)
                      .+...
T Consensus        91 ~~~~~   95 (108)
T 1x4c_A           91 GPRSP   95 (108)
T ss_dssp             SCCSC
T ss_pred             CCCCC
Confidence            77543

>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=99.34  E-value=3.1e-13  Score=127.56  Aligned_cols=93  Identities=18%  Similarity=0.337  Sum_probs=70.7

Q ss_pred             ccccccccccccccccccccccccCCCccccCcccccccccccccC----CCCCCCCCCCCCccCCceEEEEecCHHHHH
Q 002280          836 IQLEHMSEENKSSAKEDLNLEEVNGNSEAFTGASNEMGMQSSAVEN----GDNENQDPNQGHIFEPGCVFVEYMRAEASC  911 (943)
Q Consensus       836 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~----~~~~~~~~d~~~i~~~g~v~v~f~~~~~a~  911 (943)
                      +++.|+++.||+.+             .++.++.|..++++|+.+.    |.+....++.+.  ..|++||+|.+.++|+
T Consensus         5 ~ps~vv~L~Nm~~~-------------~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~--~~G~~fV~f~~~e~A~   69 (114)
T 3s6e_A            5 LATQCFQLSNMFNP-------------QTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS--AQGNVYVKCPSIAAAI   69 (114)
T ss_dssp             CCCSEEEEESSCCT-------------TTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC--TTCCEEEECSSHHHHH
T ss_pred             CCCcEEEEECCCCh-------------HHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC--CcEEEEEEECCHHHHH
Confidence            55666666666443             4344445555555555554    666555555543  3699999999999999


Q ss_pred             HHHHHhhcCccCCceEEEEeechhhHHhhcCC
Q 002280          912 MAAHSLHRRLFDDRIVAVEYIPLNLYRARFSK  943 (943)
Q Consensus       912 ~a~~~l~gr~f~~~~v~~~y~~~~~y~~~fp~  943 (943)
                      +|+++||||||+||.|.|.|++...|+++||.
T Consensus        70 ~Ai~~lnG~~f~GR~i~v~~~~~~~y~~~fp~  101 (114)
T 3s6e_A           70 AAVNALHGRWFAGKMITAAYVPLPTYHNLFPD  101 (114)
T ss_dssp             HHHHHHTTCEETTEECEEEEECHHHHHHHCGG
T ss_pred             HHHHHhCCCEECCEEEEEEEEcHHHHHHhCcc
Confidence            99999999999999999999999999999984

>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=99.34  E-value=2.2e-12  Score=122.44  Aligned_cols=76  Identities=14%  Similarity=0.104  Sum_probs=70.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC--CCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln--G~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+++    +|||||+|.+.++|.+|+..|+  +..|.|++|.|.+|.+..
T Consensus        33 ~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k~  108 (119)
T 2ad9_A           33 VIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKE  108 (119)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCCC
Confidence            8999999999999999999999999999999875    8999999999999999999987  468999999999997655


Q ss_pred             Cc
Q 002280          630 SI  631 (943)
Q Consensus       630 ~~  631 (943)
                      ..
T Consensus       109 ~~  110 (119)
T 2ad9_A          109 LK  110 (119)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.34  E-value=1.6e-12  Score=119.54  Aligned_cols=75  Identities=23%  Similarity=0.209  Sum_probs=65.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc--cc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS--FS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~--l~  536 (943)
                      ..++++|||+|||+.+|+++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. ||+..  |.
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 TPASPVVHIRGLIDGVVEADLVEALQEFG------------PISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIA   85 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccC------------CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeC
Confidence            45678999999999999999999999998            45566666789999999999999999999 99865  78


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|...+
T Consensus        86 Gr~i~V~~S~   95 (100)
T 3r27_A           86 GHPAFVNYST   95 (100)
T ss_dssp             TEEEEEEECS
T ss_pred             CcEEEEEecc
Confidence            9999987554

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.34  E-value=4e-12  Score=113.99  Aligned_cols=74  Identities=18%  Similarity=0.321  Sum_probs=69.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .+|||+|||..+++++|+++|++||.|..|.++      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus         9 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~   82 (90)
T 2dnq_A            9 VKLFIGNLPREATEQEIRSLFEQYGKVLECDII------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSK   82 (90)
T ss_dssp             EEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSCCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCCCCC
Confidence            499999999999999999999999999999986      68999999999999999999999999999999999876543

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=2.2e-12  Score=120.64  Aligned_cols=80  Identities=18%  Similarity=0.262  Sum_probs=73.0

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCee--------EEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLK--------AYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~--------~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      .+|||+|||..+++++|+++|++||.|.        .|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|
T Consensus        16 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   95 (113)
T 2cpe_A           16 SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKL   95 (113)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCCCEE
Confidence            3999999999999999999999999998        5888876  35679999999999999999999999999999999


Q ss_pred             EEEEcccCCC
Q 002280          621 TAVQAVLDGS  630 (943)
Q Consensus       621 ~V~~A~~~~~  630 (943)
                      .|.++.+...
T Consensus        96 ~V~~a~~~~~  105 (113)
T 2cpe_A           96 KVSLARKKPP  105 (113)
T ss_dssp             EEECSSCCCC
T ss_pred             EEEECCCCCC
Confidence            9999876543

>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=99.33  E-value=3.1e-12  Score=113.83  Aligned_cols=73  Identities=21%  Similarity=0.393  Sum_probs=67.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+. ++|..|.|+.|.|.+|
T Consensus        13 ~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           13 KMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEEeC
Confidence            99999999999999999999999999999998873  5668999999999999999996 5888999999999875

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

Probab=99.33  E-value=3.1e-12  Score=117.73  Aligned_cols=78  Identities=12%  Similarity=0.182  Sum_probs=71.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++|| |..|.|+.+.  +.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.++.+.
T Consensus        16 ~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~~   93 (103)
T 2dng_A           16 YTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAEGR   93 (103)
T ss_dssp             EEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEecCC
Confidence            4999999999999999999999997 9999999884  566899999999999999999 89999999999999998765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        94 ~~   95 (103)
T 2dng_A           94 KQ   95 (103)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.33  E-value=2e-12  Score=119.23  Aligned_cols=78  Identities=14%  Similarity=0.220  Sum_probs=72.0

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC---CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~---~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||..+++++|+++|+.|| |..|.|+.+.   +.++|||||+|.+.++|.+|| .|||..|.|+.|.|.++.+
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~   93 (104)
T 1wi8_A           16 YTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECCC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEccC
Confidence            4999999999999999999999999 9999998874   567999999999999999999 9999999999999999876


Q ss_pred             CCC
Q 002280          628 DGS  630 (943)
Q Consensus       628 ~~~  630 (943)
                      ...
T Consensus        94 ~~~   96 (104)
T 1wi8_A           94 AQD   96 (104)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=99.33  E-value=5.3e-13  Score=119.96  Aligned_cols=78  Identities=13%  Similarity=0.054  Sum_probs=63.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhh--hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G--~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      .+|||+|||+.+|+++|+++|++||  .+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
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 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEI------KFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNP   75 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCE------EEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEE------EEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEE
Confidence            4799999999999999999999998  43322      233444578899999999999999999998 99999999999


Q ss_pred             cccCCcc
Q 002280          541 KIKRPKE  547 (943)
Q Consensus       541 kV~rp~d  547 (943)
                      +|.....
T Consensus        76 ~V~~~~~   82 (90)
T 3p5t_L           76 VVTPSNK   82 (90)
T ss_dssp             EECCC--
T ss_pred             EEEECCC
Confidence            9986543

>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=7.3e-13  Score=118.68  Aligned_cols=78  Identities=21%  Similarity=0.347  Sum_probs=69.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.++.+.  +.++|||||+|.+.+ |.+|+..|||..|.|+.|.|.+|.+..
T Consensus         3 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~~   81 (90)
T 2ki2_A            3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPKK   81 (90)
T ss_dssp             EEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC----
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            79999999999999999999999999999998873  567999999999999 999999999999999999999987644


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        82 ~   82 (90)
T 2ki2_A           82 S   82 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.33  E-value=1.4e-12  Score=125.70  Aligned_cols=77  Identities=14%  Similarity=0.254  Sum_probs=72.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        48 ~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~~~  126 (129)
T 2kxn_B           48 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITK  126 (129)
T ss_dssp             CBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCSSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            8999999999999999999999999999999887  3567999999999999999999999999999999999988654

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=5.3e-13  Score=123.58  Aligned_cols=81  Identities=20%  Similarity=0.201  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+.      .+.+.. +.++|||||+|.+.++|..||.++|..|.|+.|
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            3458999999999999999999999998543321      222222 778999999999999999999999999999999


Q ss_pred             cccCCccc
Q 002280          541 KIKRPKEF  548 (943)
Q Consensus       541 kV~rp~d~  548 (943)
                      .|.+..+|
T Consensus        82 ~V~~~~~~   89 (103)
T 1s79_A           82 LILFKDDY   89 (103)
T ss_dssp             EEEEHHHH
T ss_pred             EEEEchHH
Confidence            99865543

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

Probab=99.33  E-value=1.6e-12  Score=112.63  Aligned_cols=73  Identities=21%  Similarity=0.330  Sum_probs=68.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||+|.+.++|.+|+..++ ..+.|+.|.|.+|
T Consensus         2 ~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            69999999999999999999999999999998873  5679999999999999999999999 9999999999876

>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=99.33  E-value=4.4e-12  Score=118.04  Aligned_cols=75  Identities=17%  Similarity=0.382  Sum_probs=70.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+    +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        27 ~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  101 (109)
T 1x4g_A           27 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPD  101 (109)
T ss_dssp             EEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCCCCC
Confidence            9999999999999999999999999999999875    89999999999999999999999999999999999876543

>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=99.33  E-value=1.4e-12  Score=115.39  Aligned_cols=79  Identities=25%  Similarity=0.303  Sum_probs=66.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDI------QIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRT   78 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEE------ECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEE------EEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            457899999999999999999999999853321      122333567789999999999999999998 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|..+
T Consensus        79 l~v~~a   84 (85)
T 3mdf_A           79 IRVNLA   84 (85)
T ss_dssp             CEEEEC
T ss_pred             EEEEEc
Confidence            998754

>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=99.33  E-value=4e-12  Score=117.33  Aligned_cols=75  Identities=11%  Similarity=0.090  Sum_probs=68.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh--CCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L--nG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+++    +|||||+|.+.++|.+|+..|  ++..|.|++|.|.+|.+..
T Consensus        17 ~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~~   92 (101)
T 2cq1_A           17 VLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKE   92 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCccc
Confidence            8999999999999999999999999999988764    899999999999999999977  5678999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        93 ~   93 (101)
T 2cq1_A           93 L   93 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=6.3e-12  Score=118.20  Aligned_cols=78  Identities=17%  Similarity=0.278  Sum_probs=72.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|++ .|.|+.|.|.+|.+.
T Consensus        18 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a~~~   96 (116)
T 2cqd_A           18 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYLG   96 (116)
T ss_dssp             SEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEcccC
Confidence            39999999999999999999999999999999887  456799999999999999999999999 899999999999664


Q ss_pred             C
Q 002280          629 G  629 (943)
Q Consensus       629 ~  629 (943)
                      .
T Consensus        97 ~   97 (116)
T 2cqd_A           97 A   97 (116)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=1.3e-12  Score=118.94  Aligned_cols=77  Identities=12%  Similarity=0.125  Sum_probs=70.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++..
T Consensus        16 ~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   94 (98)
T 2cqp_A           16 TIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSG   94 (98)
T ss_dssp             EEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcCC
Confidence            38999999999999999999999999987766665  455689999999999999999999999999999999998754

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

Probab=99.33  E-value=2.1e-12  Score=121.73  Aligned_cols=74  Identities=16%  Similarity=0.289  Sum_probs=70.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++
T Consensus        42 ~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           42 NLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             EEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            9999999999999999999999999999999877  3567999999999999999999999999999999999876

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.32  E-value=3.7e-12  Score=123.61  Aligned_cols=80  Identities=18%  Similarity=0.338  Sum_probs=74.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        44 ~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  123 (139)
T 1u6f_A           44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASGH  123 (139)
T ss_dssp             EEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCC
Confidence            99999999999999999999999999999998874  4568999999999999999999999999999999999997755


Q ss_pred             Cc
Q 002280          630 SI  631 (943)
Q Consensus       630 ~~  631 (943)
                      ..
T Consensus       124 ~~  125 (139)
T 1u6f_A          124 QR  125 (139)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.32  E-value=1.4e-12  Score=120.54  Aligned_cols=74  Identities=16%  Similarity=0.075  Sum_probs=68.0

Q ss_pred             EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC--ccCCeEEEEEEcccC
Q 002280          552 AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL--KVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~--~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||+ .+++++|+++|++||.|..|.|+++    +|||||+|.+.++|..|+..|||.  .|.|++|.|.+|...
T Consensus        17 ~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   92 (102)
T 1x4d_A           17 VVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   92 (102)
T ss_dssp             EEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             EEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCCC
Confidence            899999999 9999999999999999999998764    689999999999999999999864  499999999999653


Q ss_pred             C
Q 002280          629 G  629 (943)
Q Consensus       629 ~  629 (943)
                      .
T Consensus        93 ~   93 (102)
T 1x4d_A           93 K   93 (102)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.32  E-value=3.6e-12  Score=118.27  Aligned_cols=75  Identities=11%  Similarity=0.119  Sum_probs=68.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC--ccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL--KVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~--~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|++    .+|||||+|.+.++|.+|+..|++.  .|.|++|.|.++.+..
T Consensus        17 ~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~~   92 (104)
T 1wex_A           17 VVHVRGLCESVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKR   92 (104)
T ss_dssp             EEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCcc
Confidence            899999999999999999999999999998876    3899999999999999999988764  5999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        93 ~   93 (104)
T 1wex_A           93 I   93 (104)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.32  E-value=3e-12  Score=116.95  Aligned_cols=75  Identities=15%  Similarity=0.282  Sum_probs=70.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.+.++    +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        17 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~----kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpj_A           17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSAS   91 (99)
T ss_dssp             EEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCSC
T ss_pred             EEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC----CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCCCCC
Confidence            9999999999999999999999999999998764    89999999999999999999999999999999999977543

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=4.1e-12  Score=114.11  Aligned_cols=76  Identities=16%  Similarity=0.255  Sum_probs=70.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|+.| .|..|.|+.+ ++.++|||||+|.+.++|.+|+. |||..|.|+.|.|.+|.+.
T Consensus        11 ~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~~~   87 (91)
T 2dgw_A           11 HTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREKSG   87 (91)
T ss_dssp             CEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEESSC
T ss_pred             cEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECCcC
Confidence            389999999999999999999999 8999999887 45669999999999999999999 9999999999999998664

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=5.3e-13  Score=118.25  Aligned_cols=80  Identities=15%  Similarity=0.226  Sum_probs=67.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
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 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVST------KAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQM   76 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEE------EEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEE
Confidence            457899999999999999999999998853322      122333457789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |++.++.
T Consensus        77 ~~~~~~~   83 (85)
T 1x4e_A           77 AKQSGPS   83 (85)
T ss_dssp             CCSSCCC
T ss_pred             EeecCCC
Confidence            9998765

>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=99.32  E-value=2.5e-12  Score=118.74  Aligned_cols=75  Identities=21%  Similarity=0.257  Sum_probs=64.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c--cCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L--nG~~l~  536 (943)
                      ..+.++|||+|||+.+|+++|+++|++||            .|.++.+...+|||||+|.+.++|..|+. |  ++..|.
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 GAPSRVLHIRKLPGEVTETEVIALGLPFG------------KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLR   79 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC------------CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            35678999999999999999999999998            44555566679999999999999999998 6  467899


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|...+
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            9999998654

>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=99.32  E-value=2e-12  Score=119.15  Aligned_cols=81  Identities=23%  Similarity=0.233  Sum_probs=67.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
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 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNT------HMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   85 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            3567899999999999999999999999854332      123334467889999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        86 ~l~v~~a~   93 (105)
T 1x5u_A           86 PIRVNKAS   93 (105)
T ss_dssp             BCEEEETT
T ss_pred             EEEEEECC
Confidence            99998644

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.32  E-value=1.5e-12  Score=112.59  Aligned_cols=74  Identities=12%  Similarity=0.236  Sum_probs=63.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|++|||..|.|++|.|.+
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 KIFVGGLSVNTTVEDVKHYFEQFGKVDDA------MLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEE------CCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEEC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEE------EEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEe
Confidence            59999999999999999999999864332      123344467889999999999999999999999999999999875

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

Probab=99.32  E-value=1.4e-12  Score=122.91  Aligned_cols=80  Identities=19%  Similarity=0.147  Sum_probs=66.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+
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 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISA------KVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTK  110 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEE------EECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4567899999999999999999999998854332      122333457889999999999999999999 999999999


Q ss_pred             cccccCC
Q 002280          539 ILKIKRP  545 (943)
Q Consensus       539 ~LkV~rp  545 (943)
                      .|+|...
T Consensus       111 ~l~V~~a  117 (118)
T 2khc_A          111 RLKVQLK  117 (118)
T ss_dssp             ECCEEEC
T ss_pred             EEEEEec
Confidence            9998753

>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=99.31  E-value=1.3e-12  Score=118.19  Aligned_cols=76  Identities=11%  Similarity=0.132  Sum_probs=69.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||..+++++|+++|++||.|..+.++.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.
T Consensus        16 ~~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           16 TVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             EEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            39999999999999999999999999988777765  44568999999999999999999999999999999998764

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=2.6e-12  Score=118.54  Aligned_cols=79  Identities=11%  Similarity=0.278  Sum_probs=72.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+.. +|..|.|+.|.|.++.+.
T Consensus        17 ~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a~~~   95 (105)
T 2dh8_A           17 GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPCTPR   95 (105)
T ss_dssp             SEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCSCCS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEccCC
Confidence            39999999999999999999999999999999987  456789999999999999999998 999999999999988765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        96 ~~   97 (105)
T 2dh8_A           96 GM   97 (105)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.31  E-value=2.9e-12  Score=120.30  Aligned_cols=74  Identities=12%  Similarity=0.125  Sum_probs=68.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC-CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG-PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG-~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|++|| .|..+.|..  ..++|||||+|.+.++|.+|+..|||..|.|+.|.|.++..
T Consensus        30 ~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~--~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~~  104 (111)
T 2jvr_A           30 RITMKNLPEGCSWQDLKDLARENSLETTFSSVNT--RDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDN  104 (111)
T ss_dssp             EEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSS--CSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEc--CCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            999999999999999999999999 899988753  24799999999999999999999999999999999998743

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

Probab=99.31  E-value=3.5e-12  Score=122.62  Aligned_cols=77  Identities=13%  Similarity=0.227  Sum_probs=69.9

Q ss_pred             EEEEecCCCCCCHHHHH----HHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~----e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+    ++|++||.|..|.+.. ++.++|||||+|.+.++|..|+..|||..|.|++|.|.+|.+
T Consensus        31 ~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~-~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~~  109 (127)
T 2a3j_A           31 VVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL-SDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSET  109 (127)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC-CCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc-CCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEccC
Confidence            89999999999999865    7999999999988754 456799999999999999999999999999999999999866


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus       110 ~~  111 (127)
T 2a3j_A          110 PQ  111 (127)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.31  E-value=1.4e-12  Score=119.07  Aligned_cols=85  Identities=20%  Similarity=0.234  Sum_probs=66.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccC---CcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG---SLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~---~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .....+|||+|||+.+|+++|+++|+.||.+... ....   ...+.+..++.++|||||+|.+.++|..|+. |||..|
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~-~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~   88 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTN-KKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEF   88 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEE-TTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeec-cccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEe
Confidence            3557899999999999999999999999864320 0000   1122333457789999999999999999998 999999


Q ss_pred             ccccccccCC
Q 002280          536 SGSILKIKRP  545 (943)
Q Consensus       536 ~Gr~LkV~rp  545 (943)
                      .|+.|+|..+
T Consensus        89 ~g~~l~V~~A   98 (99)
T 2la6_A           89 SGNPIKVSFA   98 (99)
T ss_dssp             SSSBCEEEEC
T ss_pred             CCcEEEEEec
Confidence            9999998754

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.31  E-value=1.7e-12  Score=117.29  Aligned_cols=80  Identities=21%  Similarity=0.280  Sum_probs=66.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNI------VLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRP   76 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEE------EEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEE------EEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcE
Confidence            457899999999999999999999998853322      122333457789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        77 l~V~~a~   83 (95)
T 2dnz_A           77 MRVGHVT   83 (95)
T ss_dssp             CEEEESS
T ss_pred             EEEEEcc
Confidence            9998654

>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=99.31  E-value=2.3e-12  Score=117.75  Aligned_cols=76  Identities=22%  Similarity=0.319  Sum_probs=67.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..+.++|||+|||+.+|+++|+++|++||            .|..+.+..++|||||+|.+.++|..|+. |||..|.|+
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 FTQRSRLFVGNLPPDITEEEMRKLFEKYG------------KAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGK   79 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTC------------CCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcC------------CeEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            35678999999999999999999999988            44556666789999999999999999998 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      +|+|..+..
T Consensus        80 ~l~v~~a~~   88 (99)
T 2cpj_A           80 QLRVRFACH   88 (99)
T ss_dssp             CCEEEESSC
T ss_pred             eEEEEEcCC
Confidence            999986543

>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=99.31  E-value=4.8e-12  Score=125.42  Aligned_cols=79  Identities=14%  Similarity=0.270  Sum_probs=73.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|.++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+..
T Consensus        41 ~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~  120 (156)
T 1h2v_Z           41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGFK  120 (156)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCC
Confidence            99999999999999999999999999999999884  4568999999999999999999999999999999999997644


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus       121 ~  121 (156)
T 1h2v_Z          121 E  121 (156)
T ss_dssp             T
T ss_pred             C
Confidence            3

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.31  E-value=2.7e-12  Score=124.54  Aligned_cols=81  Identities=20%  Similarity=0.307  Sum_probs=67.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||..+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v------~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~  112 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESV------KIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNK  112 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEE------EEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            4567899999999999999999999999853321      122333456789999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus       113 ~l~v~~a~  120 (139)
T 1u6f_A          113 RLKVALAA  120 (139)
T ss_dssp             EEEEEESS
T ss_pred             EEEEEECC
Confidence            99998544

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

Probab=99.31  E-value=1.9e-12  Score=124.70  Aligned_cols=79  Identities=11%  Similarity=0.177  Sum_probs=72.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeE--EEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCC----ccCCeEEEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKA--YHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGL----KVGGQVLTA  622 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~--v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~----~~~gr~L~V  622 (943)
                      .+|||+|||+.+++++|+++|++||.|..  |+|+.+.  +.++|||||+|.+. +|.+|+..|||.    .|.|+.|.|
T Consensus        24 ~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V  102 (131)
T 2m2b_A           24 DTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINV  102 (131)
T ss_dssp             CEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEE
Confidence            39999999999999999999999999977  8998874  66799999999999 999999999999    999999999


Q ss_pred             EEcccCCC
Q 002280          623 VQAVLDGS  630 (943)
Q Consensus       623 ~~A~~~~~  630 (943)
                      .+|.+...
T Consensus       103 ~~a~~~~~  110 (131)
T 2m2b_A          103 EFAKGSKR  110 (131)
T ss_dssp             EECCCSCC
T ss_pred             EECCCCCC
Confidence            99977544

>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=99.31  E-value=4.5e-12  Score=118.94  Aligned_cols=76  Identities=16%  Similarity=0.366  Sum_probs=71.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+ +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        10 ~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   85 (115)
T 3lqv_A           10 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT-PETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNAN   85 (115)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS-TTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC-CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCC
Confidence            8999999999999999999999999999999875 445899999999999999999999999999999999998653

>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=4.3e-12  Score=118.86  Aligned_cols=76  Identities=18%  Similarity=0.145  Sum_probs=70.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      ..+|||+|||..+++++|+++|++||.|..|.|+.    ++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|....
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~   85 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCCc
Confidence            34999999999999999999999999999998764    68999999999999999999999999999999999986543

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=1e-11  Score=111.82  Aligned_cols=75  Identities=17%  Similarity=0.251  Sum_probs=69.3

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      ..+|||+|||..+++++|+++|++||.|..|.++      ++||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        10 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~   83 (92)
T 2dgt_A           10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIV------KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL   83 (92)
T ss_dssp             SEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC------SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccCCC
Confidence            3499999999999999999999999999999985      4599999999999999999999999999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        84 ~   84 (92)
T 2dgt_A           84 R   84 (92)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.31  E-value=4e-12  Score=119.11  Aligned_cols=78  Identities=10%  Similarity=0.150  Sum_probs=71.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCcc--------CCeEE
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKV--------GGQVL  620 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~--------~gr~L  620 (943)
                      ..+|||+|||..+++++|+++|+.||.|..|.|+.+ ++.++|||||+|.+.++|.+|+..|||..|        .+++|
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l  104 (114)
T 1x5o_A           25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPL  104 (114)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCce
Confidence            349999999999999999999999999999999887 455689999999999999999999999999        57789


Q ss_pred             EEEEccc
Q 002280          621 TAVQAVL  627 (943)
Q Consensus       621 ~V~~A~~  627 (943)
                      .|.+|.|
T Consensus       105 ~v~~a~p  111 (114)
T 1x5o_A          105 LCKFSGP  111 (114)
T ss_dssp             EEEECCC
T ss_pred             eEEccCC
Confidence            9988865

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=1.9e-12  Score=118.08  Aligned_cols=81  Identities=17%  Similarity=0.175  Sum_probs=67.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhcc-CcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSS-GVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~-g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+. .+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v------~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   79 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAFATMGETVMSV------KIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPG   79 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEE------EEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESS
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEE------EEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCC
Confidence            35678999999999999999999999998643 22      123344567788999999999999999999 99999999


Q ss_pred             cc----ccccCCc
Q 002280          538 SI----LKIKRPK  546 (943)
Q Consensus       538 r~----LkV~rp~  546 (943)
                      +.    |+|.+++
T Consensus        80 ~~~~~~l~v~~a~   92 (99)
T 2div_A           80 ATPAKRFKLNYAT   92 (99)
T ss_dssp             CSSCEECCEEETT
T ss_pred             CCcceeEEEeecC
Confidence            99    8887554

>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=99.31  E-value=4.7e-12  Score=116.39  Aligned_cols=79  Identities=23%  Similarity=0.309  Sum_probs=64.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+.      .+.+  .+.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~------i~~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   83 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCK------MITE--HTSNDPYCFVEFYEHRDAAAALAAMNGRKILGK   83 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEE------EECC--CCSSCCEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEE------EEec--CCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCC
Confidence            45678999999999999999999999998533211      1111  23468999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|.+..
T Consensus        84 ~l~V~~a~   91 (103)
T 2cqi_A           84 EVKVNWAT   91 (103)
T ss_dssp             EEEEEECC
T ss_pred             eEEEEECC
Confidence            99998654

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

Probab=99.30  E-value=4.6e-12  Score=115.34  Aligned_cols=76  Identities=20%  Similarity=0.270  Sum_probs=65.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+          . ..+.++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v----------~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   84 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSV----------P-LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTD   84 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCC----------C-SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCE----------E-EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            3457899999999999999999999999852          1 234467899999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        85 ~l~V~~a~   92 (97)
T 2e5j_A           85 TLRVALAR   92 (97)
T ss_dssp             CCEEEECC
T ss_pred             EEEEEEcC
Confidence            99998654

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

Probab=99.30  E-value=4e-12  Score=115.77  Aligned_cols=74  Identities=19%  Similarity=0.378  Sum_probs=68.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|. +.++.+  .++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+.
T Consensus        21 ~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   94 (97)
T 2e5j_A           21 DVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ--GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ   94 (97)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE--TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCCC
T ss_pred             EEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC--CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            999999999999999999999999997 566543  57899999999999999999999999999999999998664

>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=99.30  E-value=2.4e-12  Score=120.83  Aligned_cols=81  Identities=19%  Similarity=0.187  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v------~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   95 (115)
T 2cpz_A           22 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSA------KVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMK   95 (115)
T ss_dssp             CSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEE------EEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            3456899999999999999999999999864332      123333467888999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        96 ~l~V~~a~  103 (115)
T 2cpz_A           96 RLKVQLKR  103 (115)
T ss_dssp             ECEEECCC
T ss_pred             EEEEEEcC
Confidence            99998644

>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=4.4e-12  Score=119.27  Aligned_cols=78  Identities=18%  Similarity=0.292  Sum_probs=72.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+  ++.++|||||+|.+.++|.+||.. +|..|.|+.|.|.++.+..
T Consensus        29 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~~~  107 (116)
T 1x4b_A           29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVARE  107 (116)
T ss_dssp             EEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSSCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCCCc
Confidence            9999999999999999999999999999999887  356799999999999999999997 9999999999999987654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus       108 ~  108 (116)
T 1x4b_A          108 E  108 (116)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.30  E-value=3.8e-12  Score=118.10  Aligned_cols=75  Identities=21%  Similarity=0.158  Sum_probs=64.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC--Cccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG--~~l~  536 (943)
                      ..+.++|||+|||+.+|+++|+++|++||            .|.++.+...+|||||+|.+.++|..|+. |++  ..|.
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 VSVSPVVHVRGLCESVVEADLVEALEKFG------------TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIA   79 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCC------------CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            35578999999999999999999999998            44555555679999999999999999999 876  4699


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|....
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            9999998544

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.30  E-value=1.2e-12  Score=130.24  Aligned_cols=80  Identities=11%  Similarity=0.097  Sum_probs=66.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhh--hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G--~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ...++|||+|||+.+|+++|+++|..||  .+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|
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            3568999999999999999999999998  43221      233445678899999999999999999999 99999999


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      +.|.|....
T Consensus       127 r~l~V~~a~  135 (156)
T 3n9u_C          127 EKVDVRPAT  135 (156)
T ss_dssp             EECEEEECC
T ss_pred             eEeEEEEcC
Confidence            999998543

>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=99.30  E-value=3.2e-12  Score=121.41  Aligned_cols=74  Identities=22%  Similarity=0.307  Sum_probs=63.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-cc--CCcccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-Ln--G~~l~G  537 (943)
                      .+.++|||+|||+.+|+++|+++|++||.            |.++.+...+|||||+|.+.++|..|+. |+  +..|.|
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            45689999999999999999999999984            4445555569999999999999999999 77  478999


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      ++|.|...+
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            999998654

>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=99.30  E-value=4.2e-12  Score=117.84  Aligned_cols=80  Identities=18%  Similarity=0.212  Sum_probs=72.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCC-eeEEEEE-ecC--CCCCCEEEEeecChhHHHHHHHHhC--CCccCCeEEEEEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFE-VNE--DHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQ  624 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~-I~~v~l~-~d~--~~skG~aFVeF~~~e~A~kAl~~Ln--G~~~~gr~L~V~~  624 (943)
                      .+|||+|||..+++++|+++|++||. |..|.|+ .+.  +.++|||||+|.+.++|.+|+..|+  +..|.|+.|.|.+
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~   88 (109)
T 2dis_A            9 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   88 (109)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEE
Confidence            48999999999999999999999998 9999887 553  4679999999999999999999996  5999999999999


Q ss_pred             cccCCC
Q 002280          625 AVLDGS  630 (943)
Q Consensus       625 A~~~~~  630 (943)
                      |.+...
T Consensus        89 a~~~~~   94 (109)
T 2dis_A           89 AEPEID   94 (109)
T ss_dssp             SCSSCS
T ss_pred             cCCCCC
Confidence            976543

>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=99.30  E-value=1.5e-12  Score=120.42  Aligned_cols=74  Identities=19%  Similarity=0.253  Sum_probs=65.0

Q ss_pred             CCCCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC--Cccc
Q 002280          461 RPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG--~~l~  536 (943)
                      .+.++|||+|||+ .+|+++|+++|.+||            .|.++.+..++|||||+|.+.++|..|+. ||+  ..|.
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 999999999999998            45666666778999999999999999999 886  4699


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|..+.
T Consensus        81 Gr~l~V~~a~   90 (102)
T 1x4d_A           81 GKPVRVHLSQ   90 (102)
T ss_dssp             TEECEEEEEC
T ss_pred             CcEEEEEECC
Confidence            9999998654

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=2.7e-12  Score=120.09  Aligned_cols=88  Identities=22%  Similarity=0.214  Sum_probs=69.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcc--cccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~--~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ....++|||+|||+.+|+++|+++|..||.+....  ..+....+.+..++.++|||||+|.+.++|..||. |||..|.
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            45678999999999999999999999998643100  00011133444567889999999999999999999 9999999


Q ss_pred             cccccccCCcc
Q 002280          537 GSILKIKRPKE  547 (943)
Q Consensus       537 Gr~LkV~rp~d  547 (943)
                      |+.|+|.++..
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            99999986543

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.30  E-value=3.1e-12  Score=116.47  Aligned_cols=80  Identities=21%  Similarity=0.252  Sum_probs=66.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeee---eecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV---IQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~---~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      .+.++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..   ++.++|||||+|.+.++|..||. |||..|.
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 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSC------TISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD   76 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            457899999999999999999999999853321      1222223   45789999999999999999999 9999999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |+.|.|....
T Consensus        77 g~~l~V~~a~   86 (98)
T 2cpf_A           77 GHKLEVRISE   86 (98)
T ss_dssp             TEECEEECSS
T ss_pred             CeEEEEEEcc
Confidence            9999998654

>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=99.30  E-value=6.5e-12  Score=117.70  Aligned_cols=80  Identities=30%  Similarity=0.402  Sum_probs=68.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|..||.+..+      ...++..++.++|||||+|.+.++|..||. |||..|.|++
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 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGP------PIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKI   96 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSS------CCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccce------EEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            456899999999999999999999999974332      123444578899999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        97 l~v~~a~  103 (115)
T 2cpx_A           97 LVIEFGK  103 (115)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcc
Confidence            9998644

>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=99.30  E-value=8.7e-12  Score=113.86  Aligned_cols=70  Identities=17%  Similarity=0.268  Sum_probs=66.9

Q ss_pred             EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||. .+++++|+++|++||.|..|.|      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        24 ~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   94 (97)
T 2xnq_A           24 RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSS   94 (97)
T ss_dssp             EEEEESCCSSCCCHHHHHHHHGGGSCEEEEEE------CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCC
T ss_pred             EEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCC
Confidence            999999998 9999999999999999999988      489999999999999999999999999999999998855

>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=99.30  E-value=1.8e-12  Score=118.85  Aligned_cols=75  Identities=15%  Similarity=0.236  Sum_probs=70.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC---CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~---~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|+.|| |..|.|+.+.   +.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.+|.+.
T Consensus        21 ~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a~~~   98 (100)
T 2j76_E           21 TAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVADQA   98 (100)
T ss_dssp             EEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEECCCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEeccCC
Confidence            999999999999999999999999 9999998763   567999999999999999999 89999999999999988653

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

Probab=99.30  E-value=1.7e-12  Score=114.13  Aligned_cols=72  Identities=17%  Similarity=0.271  Sum_probs=61.4

Q ss_pred             CeEEEcCCCCCC------CHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          464 RRLCVENLPLSA------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       464 rtLfVgNLP~~v------TEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ++|||+|||+.+      |+++|+++|++||.+..+       .+. ..++.++|||||+|.+.++|..|+. |||..|.
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-------FYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD   73 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEE-------ECC-CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEE-------Eec-CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccC
Confidence            689999999999      789999999999864332       111 3467889999999999999999999 9999999


Q ss_pred             cc-ccccc
Q 002280          537 GS-ILKIK  543 (943)
Q Consensus       537 Gr-~LkV~  543 (943)
                      |+ +|+|.
T Consensus        74 g~~~l~V~   81 (81)
T 2krb_A           74 KQHTFRVN   81 (81)
T ss_dssp             SSSCCCCC
T ss_pred             CceeEEeC
Confidence            99 99873

>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=99.30  E-value=1.2e-12  Score=116.52  Aligned_cols=79  Identities=18%  Similarity=0.258  Sum_probs=66.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+.+++..|.|+.
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 EEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDC------TIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRV   81 (87)
T ss_dssp             CSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEE------EEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEE------EEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEE
Confidence            4567899999999999999999999999853332      1223334577899999999999999999998888999999


Q ss_pred             ccccC
Q 002280          540 LKIKR  544 (943)
Q Consensus       540 LkV~r  544 (943)
                      |.|.+
T Consensus        82 i~v~~   86 (87)
T 3s7r_A           82 IDPKK   86 (87)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            98864

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.30  E-value=3.6e-12  Score=116.75  Aligned_cols=72  Identities=19%  Similarity=0.323  Sum_probs=68.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|+.||.|..|.+..    ++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
T Consensus        29 ~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  100 (101)
T 2la4_A           29 TAYIGNIPHFATEADLIPLFQNFGFILDFKHYP----EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE  100 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCC
T ss_pred             EEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccC
Confidence            899999999999999999999999999999873    689999999999999999999999999999999988754

>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=99.29  E-value=1.9e-12  Score=125.96  Aligned_cols=76  Identities=13%  Similarity=0.145  Sum_probs=70.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCC---eeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~---I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||+.+|+++|+++|+.||.   |..|.|+.+. +.++|||||+|.+.++|.+||. |||..|+|+.|.|.++.
T Consensus        45 ~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a~  123 (136)
T 2hgl_A           45 FVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKSH  123 (136)
T ss_dssp             CEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEECC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEECC
Confidence            38999999999999999999999999   8889998874 5679999999999999999999 99999999999999875


Q ss_pred             c
Q 002280          627 L  627 (943)
Q Consensus       627 ~  627 (943)
                      +
T Consensus       124 ~  124 (136)
T 2hgl_A          124 R  124 (136)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=3.4e-12  Score=115.30  Aligned_cols=80  Identities=26%  Similarity=0.346  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADV------SIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRR   86 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEE------EEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEE------EEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            456899999999999999999999999853221      122333446788999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|..++
T Consensus        87 l~v~~a~   93 (95)
T 2cqc_A           87 IRVSGPS   93 (95)
T ss_dssp             EEEECCS
T ss_pred             EEEEecC
Confidence            9998654

>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=99.29  E-value=2.1e-12  Score=117.31  Aligned_cols=79  Identities=22%  Similarity=0.343  Sum_probs=65.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +.++|||+|||..+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
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 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINL------KMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL   74 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEE------ECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCEEEE------EEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            35799999999999999999999999853322      122333457789999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|....
T Consensus        75 ~V~~a~   80 (96)
T 2x1f_A           75 KCGYSS   80 (96)
T ss_dssp             EEEECS
T ss_pred             EEEEcC
Confidence            998544

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=2.7e-12  Score=116.27  Aligned_cols=81  Identities=17%  Similarity=0.171  Sum_probs=67.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|++||.+..+.     ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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            3568999999999999999999999998643320     122333567889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        78 l~v~~a~   84 (96)
T 1x5t_A           78 ITVSYAF   84 (96)
T ss_dssp             CEEEESC
T ss_pred             EEEEEec
Confidence            9998543

>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=7.6e-12  Score=116.60  Aligned_cols=72  Identities=24%  Similarity=0.377  Sum_probs=68.1

Q ss_pred             EEEEecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~-~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||.. +++++|+++|++||.|..|.|      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        29 ~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~  101 (110)
T 1wf1_A           29 RVFIGNLNTALVKKSDVETIFSKYGRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEPK  101 (110)
T ss_dssp             EEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCCCC
T ss_pred             EEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCCC
Confidence            9999999999 999999999999999999988      58999999999999999999999999999999999986533

>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=99.29  E-value=2.4e-12  Score=117.20  Aligned_cols=80  Identities=18%  Similarity=0.251  Sum_probs=67.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|.+||. |||..|.|+.
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            456799999999999999999999998864321      244555677889999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        87 l~V~~a~   93 (98)
T 2cqp_A           87 VKLVLGS   93 (98)
T ss_dssp             CEEEESS
T ss_pred             EEEEEcC
Confidence            9998654

>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=99.29  E-value=5.3e-12  Score=111.67  Aligned_cols=71  Identities=21%  Similarity=0.426  Sum_probs=67.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh-CCCccCCeEEEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L-nG~~~~gr~L~V~~A  625 (943)
                      .+|||+|||..+++++|+++|++||.|..|.++++    +|||||+|.+.++|.+|+..| +|..|.|+.|.|.+|
T Consensus        13 ~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~----kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR----QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             CCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG----GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             cEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC----CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            48999999999999999999999999999999874    899999999999999999999 999999999999886

>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=99.29  E-value=5.8e-12  Score=114.59  Aligned_cols=74  Identities=22%  Similarity=0.250  Sum_probs=65.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc--c
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS--G  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~--G  537 (943)
                      .+.++|||+|||+.+|+++|+++|++||            .|..+.+...+|||||+|.+.++|..|+. |||..|.  |
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 NPTTRLWVGGLGPNTSLAALAREFDRFG------------SIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPD   82 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTS------------CEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC------------CeeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCC
Confidence            4568999999999999999999999988            44555555669999999999999999999 9999999  9


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      +.|+|....
T Consensus        83 ~~l~V~~a~   91 (97)
T 1why_A           83 RRLRVDFAK   91 (97)
T ss_dssp             CBCEEEECC
T ss_pred             cEEEEEECC
Confidence            999998654

>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=99.29  E-value=1.9e-12  Score=120.73  Aligned_cols=82  Identities=24%  Similarity=0.314  Sum_probs=67.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+
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 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESI------QLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGR   96 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEE------EEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4567899999999999999999999998853321      122333456789999999999999999998 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      .|+|...+.
T Consensus        97 ~l~V~~a~~  105 (108)
T 2jrs_A           97 PMKVGHVTE  105 (108)
T ss_dssp             CCEEECSCS
T ss_pred             EEEEEEccc
Confidence            999986543

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.29  E-value=4.3e-12  Score=114.46  Aligned_cols=80  Identities=20%  Similarity=0.271  Sum_probs=65.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v------~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   86 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKV------TIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGR   86 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEE------EECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE------EEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            3457899999999999999999999998853321      122333447789999999999999999998 999999999


Q ss_pred             cccccCC
Q 002280          539 ILKIKRP  545 (943)
Q Consensus       539 ~LkV~rp  545 (943)
                      +|+|...
T Consensus        87 ~l~v~~a   93 (94)
T 2e5h_A           87 VIKASIA   93 (94)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEec
Confidence            9998754

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=1e-11  Score=111.40  Aligned_cols=74  Identities=22%  Similarity=0.278  Sum_probs=68.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+      ++||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        10 ~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   83 (90)
T 2dnp_A           10 WKIFVGNVSAACTSQELRSLFERRGRVIECDVV------KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQK   83 (90)
T ss_dssp             CCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCCCCC
Confidence            389999999999999999999999999999986      45999999999999999999999999999999999976543

>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=99.29  E-value=8e-12  Score=116.13  Aligned_cols=78  Identities=24%  Similarity=0.308  Sum_probs=64.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+         .-...+.++|||||+|.+.++|..||. ||+..|.|+
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 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDI---------DLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGY   89 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEE---------EECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE---------EEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            3457899999999999999999999999853221         111234578999999999999999997 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|...+
T Consensus        90 ~l~V~~a~   97 (109)
T 1x4a_A           90 RLRVEFPR   97 (109)
T ss_dssp             ECEEECCC
T ss_pred             EEEEEEcc
Confidence            99998654

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=2.1e-12  Score=118.38  Aligned_cols=81  Identities=26%  Similarity=0.308  Sum_probs=68.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+
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 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDI------QIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGR   82 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCE------ECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEE------EEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            3567899999999999999999999999864332      123344567889999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
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

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.29  E-value=7e-12  Score=117.01  Aligned_cols=77  Identities=19%  Similarity=0.293  Sum_probs=71.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..+ |..|.|+.|.|.++.+..
T Consensus        27 ~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a~~~~  105 (109)
T 2rs2_A           27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVAFPRR  105 (109)
T ss_dssp             CEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEECCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEccCCC
Confidence            99999999999999999999999999999998873  677999999999999999999976 599999999999987643

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

Probab=99.29  E-value=6e-12  Score=117.34  Aligned_cols=72  Identities=25%  Similarity=0.392  Sum_probs=68.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|.      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        33 ~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~  104 (108)
T 2jvo_A           33 RLFVRPFPLDVQESELNEIFGPFGPMKEVKIL------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPA  104 (108)
T ss_dssp             EEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCCC
Confidence            99999999999999999999999999999986      7999999999999999999999999999999999886543

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.29  E-value=3.1e-12  Score=120.13  Aligned_cols=77  Identities=21%  Similarity=0.242  Sum_probs=64.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhh-hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFL-LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G-~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      .+...+|||+|||+.+|+++|+++|.+|| .+..          +.+....++|||||+|.+.++|..||. |||..|.|
T Consensus        25 p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~----------v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           25 PAKRYRITMKNLPEGCSWQDLKDLARENSLETTF----------SSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSE----------EECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEE----------EEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34567999999999999999999999998 4221          122224689999999999999999998 99999999


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      +.|+|....
T Consensus        95 r~i~V~~a~  103 (111)
T 2jvr_A           95 SVITVERDD  103 (111)
T ss_dssp             EEEEEEESC
T ss_pred             eEEEEEECC
Confidence            999998654

>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=99.29  E-value=1.4e-12  Score=115.84  Aligned_cols=80  Identities=19%  Similarity=0.200  Sum_probs=65.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||..+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v------~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   77 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDA------RVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQ   77 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcCCEeEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            346799999999999999999999999853321      122233456789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        78 l~v~~a~   84 (87)
T 3bs9_A           78 IRTNWAT   84 (87)
T ss_dssp             CEEEEEC
T ss_pred             EEEEecC
Confidence            9987543

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=1.1e-12  Score=116.31  Aligned_cols=74  Identities=12%  Similarity=0.288  Sum_probs=68.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..+.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|++.++
T Consensus         7 ~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            7 GLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             EEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            8999999999999999999999999999999887  4567999999999999999999999999999998877543

>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=99.29  E-value=2e-12  Score=116.84  Aligned_cols=80  Identities=19%  Similarity=0.304  Sum_probs=66.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|.+||. |||..|.|++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~------~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   86 (95)
T 2ek1_A           13 PGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGS------VCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRK   86 (95)
T ss_dssp             --CEEEEEECCCTTCCHHHHHHHTTTSCBCTTC------CEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCccce------EEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcE
Confidence            345899999999999999999999998863321      234455567889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|..++
T Consensus        87 l~v~~a~   93 (95)
T 2ek1_A           87 VKLSGPS   93 (95)
T ss_dssp             CEEECCC
T ss_pred             EEEEecc
Confidence            9998654

>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=99.29  E-value=8.3e-12  Score=114.92  Aligned_cols=73  Identities=21%  Similarity=0.348  Sum_probs=68.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+...
T Consensus        13 ~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   85 (103)
T 2dgu_A           13 VLFVRNLANTVTEEILEKAFSQFGKLERVKKL------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQ   85 (103)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCCCcc
Confidence            89999999999999999999999999999885      56999999999999999999999999999999999977554

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.28  E-value=6e-12  Score=114.84  Aligned_cols=80  Identities=20%  Similarity=0.346  Sum_probs=66.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..||.||+..|.|+.|
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 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEV------VMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKV   81 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEE------EECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEE
Confidence            457899999999999999999999998853221      12223345778999999999999999999999999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|....
T Consensus        82 ~V~~a~   87 (99)
T 2dgs_A           82 EVKRAE   87 (99)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            998543

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

Probab=99.28  E-value=5.9e-12  Score=121.91  Aligned_cols=74  Identities=18%  Similarity=0.382  Sum_probs=69.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..+.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|
T Consensus        65 ~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~A  140 (140)
T 2ku7_A           65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA  140 (140)
T ss_dssp             EEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC-
T ss_pred             EEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            9999999999999999999999999999999887  4567999999999999999999999999999999999865

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.28  E-value=2.3e-12  Score=118.54  Aligned_cols=80  Identities=25%  Similarity=0.309  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+.
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 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDV------YIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRE   84 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEE------ECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            457899999999999999999999999853322      122334457889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        85 l~V~~a~   91 (103)
T 2dnm_A           85 LRVQVAR   91 (103)
T ss_dssp             CEEEECS
T ss_pred             EEEEECC
Confidence            9998654

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.28  E-value=3.1e-12  Score=117.33  Aligned_cols=81  Identities=23%  Similarity=0.347  Sum_probs=67.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+.      .+.+..++.++|||||+|.+.++|..||. |||..|.|+
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            35678999999999999999999999998643321      22333456789999999999999999997 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|....
T Consensus        83 ~l~v~~a~   90 (102)
T 1x5s_A           83 QIRVDQAG   90 (102)
T ss_dssp             CCEEEEEE
T ss_pred             EEEEEECC
Confidence            99998543

>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=2.1e-12  Score=111.48  Aligned_cols=73  Identities=19%  Similarity=0.324  Sum_probs=67.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..+.++.+.  +.++|||||+|.+.++|.+|+. ++|..|.|+.|.|.+|
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            58999999999999999999999999999988773  5679999999999999999998 5899999999998864

>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=99.28  E-value=3.1e-12  Score=116.67  Aligned_cols=80  Identities=30%  Similarity=0.410  Sum_probs=66.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++
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 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSEL------HYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEE------EEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            457899999999999999999999999853322      122333357789999999999999999997 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        80 l~V~~a~   86 (99)
T 1whw_A           80 LHVLPST   86 (99)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9998544

>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=99.28  E-value=2.2e-12  Score=116.63  Aligned_cols=80  Identities=24%  Similarity=0.287  Sum_probs=65.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+.      .+.+. .+.++|||||+|.+.++|..|+. |||..|.|+
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------ICKDR-EGKPKSFGFVCFKHPESVSYAIALLNGIRLYGR   85 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEE------EEECT-TSCEEEEEEEEESSTHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEE------EEECC-CCCCceEEEEEECCHHHHHHHHHHhCCCEECCC
Confidence            34568999999999999999999999998533211      11111 26678999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|..++
T Consensus        86 ~l~V~~a~   93 (95)
T 2ywk_A           86 PINVSGPS   93 (95)
T ss_dssp             ECEEECCC
T ss_pred             EEEEEEcC
Confidence            99998654

>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=99.28  E-value=3.5e-12  Score=115.73  Aligned_cols=77  Identities=14%  Similarity=0.232  Sum_probs=70.7

Q ss_pred             EEEEecCCCCCCHHHHH----HHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~----e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+    ++|++||.|..|.+.. ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+
T Consensus        10 ~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   88 (97)
T 1nu4_A           10 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT   88 (97)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH-HHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc-CCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEccC
Confidence            89999999999999999    9999999999998864 345689999999999999999999999999999999999876


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus        89 ~~   90 (97)
T 1nu4_A           89 DS   90 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.28  E-value=3.4e-12  Score=117.65  Aligned_cols=80  Identities=26%  Similarity=0.274  Sum_probs=65.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc-
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG-  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G-  537 (943)
                      ....++|||+|||+.+|+++|+++|+.||.+..+.      .+.+ .++.++|||||+|.+.++|..||. |||..|.| 
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------VLRG-PDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPG   84 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEE------EEEC-SSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEEC-CCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCC
Confidence            34578999999999999999999999998533321      1122 246779999999999999999999 99999988 


Q ss_pred             --ccccccCCc
Q 002280          538 --SILKIKRPK  546 (943)
Q Consensus       538 --r~LkV~rp~  546 (943)
                        ++|.|....
T Consensus        85 ~~~~l~V~~a~   95 (105)
T 2dnh_A           85 ASSSLVVKFAD   95 (105)
T ss_dssp             CSSCCEEEESC
T ss_pred             CCccEEEEECc
Confidence              999998544

>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=99.28  E-value=8.7e-12  Score=116.00  Aligned_cols=76  Identities=21%  Similarity=0.311  Sum_probs=67.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||..+|+++|+++|..||            .|..+.+...+|||||+|.+.++|..|+. |||..|.|+
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 SPKNCTVYCGGIASGLTDQLMRQTFSPFG------------QIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGH   89 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC------------CeEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            45678999999999999999999999998            45566666669999999999999999998 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      .|+|.+...
T Consensus        90 ~l~v~~a~~   98 (109)
T 1x4g_A           90 VVKCYWGKE   98 (109)
T ss_dssp             ECEEECCCC
T ss_pred             EEEEEecCC
Confidence            999986543

>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=99.28  E-value=3.5e-12  Score=119.87  Aligned_cols=77  Identities=14%  Similarity=0.126  Sum_probs=70.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCe-eEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPL-KAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I-~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|+.||.| ..|.|+.+ ++.++|||||+|.+.++|.+||.. ||..|.|+.|.|.+|.+..
T Consensus        17 ~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~~~~   95 (114)
T 2cpy_A           17 CAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVTLED   95 (114)
T ss_dssp             EEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEECHHH
T ss_pred             EEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECCHHH
Confidence            99999999999999999999999999 88998877 456799999999999999999986 9999999999999986543

>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=99.27  E-value=2.4e-12  Score=120.95  Aligned_cols=75  Identities=29%  Similarity=0.393  Sum_probs=65.2

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC--Ccc
Q 002280          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG--CSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~-vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG--~~l  535 (943)
                      ..+.++|||+|||+. +|+++|+++|.+||            .|.++.+..++|||||+|.+.++|..|+. |++  ..|
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 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG------------KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWF   89 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS------------CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCS
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcC------------CEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            456789999999998 99999999999998            44566667889999999999999999998 764  679


Q ss_pred             ccccccccCCc
Q 002280          536 SGSILKIKRPK  546 (943)
Q Consensus       536 ~Gr~LkV~rp~  546 (943)
                      .|++|.|....
T Consensus        90 ~Gr~l~V~~a~  100 (112)
T 1x4f_A           90 QGRCVKVDLSE  100 (112)
T ss_dssp             SSSCCEEEEEC
T ss_pred             CCEEEEEEECc
Confidence            99999998654

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=9.2e-12  Score=111.63  Aligned_cols=72  Identities=22%  Similarity=0.361  Sum_probs=63.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.            |..+.+.  +|||||+|.+.++|..|+. |||..|.|+.
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            45789999999999999999999999884            3444443  8999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|.+..
T Consensus        72 l~v~~a~   78 (90)
T 2dnq_A           72 INVEASK   78 (90)
T ss_dssp             CEEECSS
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=99.27  E-value=4.5e-12  Score=113.88  Aligned_cols=78  Identities=22%  Similarity=0.209  Sum_probs=65.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+       .+. ..++.++|||||+|.+.++|..|+. |||..|.|+.
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            457899999999999999999999999853321       111 1356789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        78 l~v~~a~   84 (92)
T 2dgv_A           78 IDVRIDR   84 (92)
T ss_dssp             CCCEECS
T ss_pred             EEEEEcC
Confidence            9998654

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.27  E-value=2.4e-12  Score=121.99  Aligned_cols=81  Identities=25%  Similarity=0.291  Sum_probs=65.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|+.||...++..+   ..+.+.. +.++|||||+|.+.++|.+||.|||..|.|+.
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v---~i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~   89 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGV---HFIYTRE-GRQSGEAFVELESEDDVKLALKKDRESMGHRY   89 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGE---EEEECSS-SCEEEEEEEEBSSHHHHHHHGGGTTEEETTEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeE---EEEECCC-CCCCeEEEEEECCHHHHHHHHhcCCCeECCeE
Confidence            3457899999999999999999999998852212222   1233333 78899999999999999999999999999999


Q ss_pred             ccccC
Q 002280          540 LKIKR  544 (943)
Q Consensus       540 LkV~r  544 (943)
                      |.|..
T Consensus        90 i~V~~   94 (118)
T 2db1_A           90 IEVFK   94 (118)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            98863

>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=99.27  E-value=2.1e-12  Score=113.67  Aligned_cols=77  Identities=21%  Similarity=0.287  Sum_probs=64.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      .+|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++|+|
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 FNLFVGDLNVNVDDETLRNAFKDFPSYLSG------HVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRI   75 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEE------EEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEE------EEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEE
Confidence            589999999999999999999998853322      122333457779999999999999999999 9999999999999


Q ss_pred             cCCc
Q 002280          543 KRPK  546 (943)
Q Consensus       543 ~rp~  546 (943)
                      ....
T Consensus        76 ~~a~   79 (83)
T 3md1_A           76 NWAA   79 (83)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            8654

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=9.1e-12  Score=116.53  Aligned_cols=74  Identities=11%  Similarity=0.133  Sum_probs=68.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.| .|..|.|+.+. +.++|||||+|.+.++|.+|| .|||..|+|+.|.|..+.+
T Consensus        18 ~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           18 YVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATE   92 (109)
T ss_dssp             EEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCH
T ss_pred             EEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCc
Confidence            89999999999999999999999 88999998873 567999999999999999999 6999999999999988754

>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=99.27  E-value=5e-12  Score=116.76  Aligned_cols=81  Identities=17%  Similarity=0.181  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc---
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF---  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l---  535 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..+   
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 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYEL------TVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPG   83 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEE------ECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEE------EEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCC
Confidence            4567899999999999999999999999864332      133444567889999999999999999999 999887   


Q ss_pred             ccccccccCCc
Q 002280          536 SGSILKIKRPK  546 (943)
Q Consensus       536 ~Gr~LkV~rp~  546 (943)
                      .|++|.|.+..
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            88999998644

>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=99.27  E-value=4.2e-12  Score=119.93  Aligned_cols=79  Identities=24%  Similarity=0.287  Sum_probs=65.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+.      .+.+. ++.++|||||+|.+.++|..|+. |||..|.|+.
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------LIKDR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHGKA   77 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEE------EECST-TTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEE------EEECC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            4568999999999999999999999998643321      11222 67789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|...+
T Consensus        78 l~V~~a~   84 (116)
T 2fy1_A           78 IKVEQAK   84 (116)
T ss_dssp             CEEEECC
T ss_pred             EEEEECC
Confidence            9998543

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.27  E-value=4.3e-12  Score=115.04  Aligned_cols=76  Identities=12%  Similarity=0.208  Sum_probs=69.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|+.||.|..+   ..++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        17 ~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (96)
T 1fjc_A           17 RTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKG   92 (96)
T ss_dssp             GEEEEESCCSSCCHHHHHHHHCSEEEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhCCcEEEe---CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            399999999999999999999999988766   4456779999999999999999999999999999999999986644

>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=99.27  E-value=5.3e-12  Score=117.43  Aligned_cols=81  Identities=27%  Similarity=0.332  Sum_probs=67.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-cc------C
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD------G  532 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-Ln------G  532 (943)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. ||      |
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 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYV------RVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGG   85 (111)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEE------ECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCC
Confidence            3567899999999999999999999999853322      133344567889999999999999999999 99      9


Q ss_pred             CccccccccccCCc
Q 002280          533 CSFSGSILKIKRPK  546 (943)
Q Consensus       533 ~~l~Gr~LkV~rp~  546 (943)
                      ..|.|+.|.|.+..
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            99999999998654

>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=99.27  E-value=7.2e-12  Score=115.77  Aligned_cols=77  Identities=12%  Similarity=0.233  Sum_probs=70.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||+.+++++|+++|+.||.|.. |.|+.+ ++.++|||||+|.+.++|.+||.. ||..|+|+.|.|.++.+.
T Consensus        16 ~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~~~~   94 (104)
T 1wg5_A           16 GFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKSSRA   94 (104)
T ss_dssp             CEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEECTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEECCHH
Confidence            39999999999999999999999999987 877776 566799999999999999999997 999999999999988653

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

Probab=99.27  E-value=9.2e-12  Score=119.71  Aligned_cols=77  Identities=19%  Similarity=0.268  Sum_probs=63.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH----HHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          461 RPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~----elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .+.++|||+|||+.+++++|+    ++|++||.+..+         .-..++.++|||||+|.+.++|..|+. |||..|
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            456899999999999999876    689999853221         112347889999999999999999998 999999


Q ss_pred             ccccccccCCc
Q 002280          536 SGSILKIKRPK  546 (943)
Q Consensus       536 ~Gr~LkV~rp~  546 (943)
                      .|++|+|.+..
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            99999998654

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.27  E-value=2e-11  Score=111.39  Aligned_cols=72  Identities=15%  Similarity=0.242  Sum_probs=67.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc--CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF--GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f--G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++|  |.|..|.+      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        17 ~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   90 (99)
T 2cpd_A           17 ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK------IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   90 (99)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE------CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEE------eCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCCCC
Confidence            99999999999999999999999  89988876      37899999999999999999999999999999999987654

>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=99.27  E-value=9.4e-12  Score=113.65  Aligned_cols=73  Identities=19%  Similarity=0.260  Sum_probs=63.7

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          460 NRPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      .+..++|||+|||+ .+|+++|+++|+.||.            |..+.+  .+|||||+|.+.++|..|+. |||..|.|
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            45678999999998 9999999999999884            444444  48999999999999999999 99999999


Q ss_pred             ccccccCCc
Q 002280          538 SILKIKRPK  546 (943)
Q Consensus       538 r~LkV~rp~  546 (943)
                      +.|+|...+
T Consensus        85 ~~l~V~~a~   93 (97)
T 2xnq_A           85 KKLILEVSS   93 (97)
T ss_dssp             EECEEEECC
T ss_pred             EEEEEEecC
Confidence            999987544

>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=99.27  E-value=8.6e-12  Score=110.82  Aligned_cols=78  Identities=19%  Similarity=0.289  Sum_probs=63.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec-CCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~-skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ..++|||+|||+.+|+++|+++|.+||.+..+   .   .+.+..++. ++|||||+|.+.++|..|+. |||..|.|+.
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 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMI---D---MPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQE   76 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEE---E---CCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEE---E---EEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeE
Confidence            46799999999999999999999999853221   1   222333333 89999999999999999999 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|...
T Consensus        77 l~v~~a   82 (88)
T 4a8x_A           77 ITATAV   82 (88)
T ss_dssp             CEEEEE
T ss_pred             EEEEEC
Confidence            998743

>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=99.27  E-value=3.3e-12  Score=110.27  Aligned_cols=74  Identities=16%  Similarity=0.196  Sum_probs=63.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+.+++..|.|+.|.|.+
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 KIFVGGLSPDTPEEKIREYFGGFGEVESI------ELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEE------CCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            69999999999999999999999864332      133444568889999999999999999999999999999998864

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.26  E-value=1e-11  Score=114.73  Aligned_cols=81  Identities=21%  Similarity=0.337  Sum_probs=67.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceee-eeeecCCCeeeEEeCCHHHHHHHHH-c-cCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIG-CVIQREKGQAFVEFLTAEDASAALC-C-DGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~-~~~~~skGyAFVeF~s~edA~~Al~-L-nG~~l~  536 (943)
                      ....++|||+|||+.+|+++|+++|..||.+..+   .   .+.+ ..++.++|||||+|.+.++|..||. | ||..|.
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 KQTTSKILVRNIPFQANQREIRELFSTFGELKTV---R---LPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY   85 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEE---E---CCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEE---E---EecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeEC
Confidence            4567899999999999999999999999853332   1   2223 3467789999999999999999999 9 999999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |+.|.|.+..
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            9999998654

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.26  E-value=4.1e-12  Score=120.33  Aligned_cols=77  Identities=13%  Similarity=0.150  Sum_probs=70.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCC---eeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~---I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .+|||+|||+.+++++|+++|+.||.   |..|.|+.+. +.++|||||+|.+.++|.+||. |||..|+|+.|.|.++.
T Consensus        18 ~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~   96 (118)
T 2db1_A           18 YVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKSH   96 (118)
T ss_dssp             CEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEECC
Confidence            38999999999999999999999999   8899998874 5569999999999999999999 99999999999999885


Q ss_pred             cC
Q 002280          627 LD  628 (943)
Q Consensus       627 ~~  628 (943)
                      +.
T Consensus        97 ~~   98 (118)
T 2db1_A           97 RT   98 (118)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

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

Probab=99.26  E-value=2.8e-12  Score=118.72  Aligned_cols=80  Identities=16%  Similarity=0.233  Sum_probs=67.3

Q ss_pred             CCCCeEEEcCCCCCC------CHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC
Q 002280          461 RPMRRLCVENLPLSA------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC  533 (943)
Q Consensus       461 ~~~rtLfVgNLP~~v------TEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~  533 (943)
                      ...++|||+|||+.+      |+++|+++|++||.+..+       .+. ..+|.++|||||+|.+.++|..|+. |||.
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-------FYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGY   84 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEE-------ECC-CBTTBSCCEEEEEECSSSHHHHHHHHCSSE
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEE-------Eee-CCCCCeeeEEEEEECCHHHHHHHHHHhCCc
Confidence            446899999999999      889999999999864332       111 2467889999999999999999999 9999


Q ss_pred             ccccc-cccccCCccc
Q 002280          534 SFSGS-ILKIKRPKEF  548 (943)
Q Consensus       534 ~l~Gr-~LkV~rp~d~  548 (943)
                      .|.|+ +|+|..+.+.
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            99998 9999877653

>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=99.26  E-value=9.2e-12  Score=116.70  Aligned_cols=77  Identities=16%  Similarity=0.289  Sum_probs=69.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCee----EEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLK----AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~----~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|.    .+.+.  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
T Consensus        27 ~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~  104 (115)
T 2cpx_A           27 VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM--TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN  104 (115)
T ss_dssp             EEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE--CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC--CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEccC
Confidence            999999999999999999999999984    44443  667899999999999999999999999999999999999976


Q ss_pred             CCC
Q 002280          628 DGS  630 (943)
Q Consensus       628 ~~~  630 (943)
                      ...
T Consensus       105 ~~~  107 (115)
T 2cpx_A          105 KKQ  107 (115)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            544

>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=99.26  E-value=2.8e-12  Score=114.36  Aligned_cols=79  Identities=22%  Similarity=0.270  Sum_probs=66.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      .++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+.|||..|.|+.|+|
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 ARSIYVGNVDYGATAEELEAHFHGCGSVNRV------TILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKV   79 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEE------EEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEE------EEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEE
Confidence            4799999999999999999999999853322      1223334678899999999999999999999999999999999


Q ss_pred             cCCcc
Q 002280          543 KRPKE  547 (943)
Q Consensus       543 ~rp~d  547 (943)
                      .+...
T Consensus        80 ~~a~~   84 (89)
T 3ucg_A           80 IPKRT   84 (89)
T ss_dssp             EETTT
T ss_pred             EEccC
Confidence            86543

>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=99.26  E-value=5.7e-12  Score=118.05  Aligned_cols=73  Identities=19%  Similarity=0.178  Sum_probs=65.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|.+||            .|..+.+..++|||||+|.+.++|..|+. |||..|.|++|
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G------------~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   76 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFG------------SLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPL   76 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTS------------CEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC------------CEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeEE
Confidence            457999999999999999999999988            45566666789999999999999999999 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|.+..
T Consensus        77 ~V~~a~   82 (111)
T 1whx_A           77 YLEWAP   82 (111)
T ss_dssp             EEEEEE
T ss_pred             EEEECC
Confidence            997544

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.26  E-value=7.4e-12  Score=114.66  Aligned_cols=76  Identities=14%  Similarity=0.197  Sum_probs=68.4

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|++||.|   .++.+ ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        16 ~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (101)
T 2fc9_A           16 KTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRG   92 (101)
T ss_dssp             SEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCCCC
Confidence            399999999999999999999999987   44444 56679999999999999999999999999999999999997654

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

Probab=99.26  E-value=4e-12  Score=122.47  Aligned_cols=82  Identities=17%  Similarity=0.239  Sum_probs=68.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC----c
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC----S  534 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~----~  534 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+... .+   ..+.+..++.++|||||+|.+. +|..|+. |||.    .
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            3456899999999999999999999999864220 01   2445666899999999999999 9999999 9999    9


Q ss_pred             cccccccccCCc
Q 002280          535 FSGSILKIKRPK  546 (943)
Q Consensus       535 l~Gr~LkV~rp~  546 (943)
                      |.|+.|.|....
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            999999998543

>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=99.26  E-value=5.9e-12  Score=133.18  Aligned_cols=76  Identities=17%  Similarity=0.205  Sum_probs=72.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcC--CeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFG--PLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG--~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|++||  .|..|.|+.+  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+
T Consensus        70 ~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a~~  149 (229)
T 3q2s_C           70 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNK  149 (229)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEECCH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEECCC
Confidence            899999999999999999999999  9999999988  456799999999999999999999999999999999999865

>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=4.8e-12  Score=116.84  Aligned_cols=75  Identities=11%  Similarity=0.196  Sum_probs=68.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||+.+++++|+++|+.||.+ .|.|+.+ ++.++|||||+|.+.++|.+||. +|+..|.|+.|.|..+.+.
T Consensus        17 ~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~~~~~   92 (102)
T 1wez_A           17 CVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNSTA   92 (102)
T ss_dssp             EEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECCCC
Confidence            99999999999999999999999955 8988887 45679999999999999999994 8999999999999987553

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

Probab=99.26  E-value=8.5e-12  Score=113.42  Aligned_cols=73  Identities=16%  Similarity=0.259  Sum_probs=68.4

Q ss_pred             EEEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||. .+++++|+++|++||.|..|.|.      +|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus        11 ~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~   84 (96)
T 2kvi_A           11 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNA   84 (96)
T ss_dssp             EEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEECCC
T ss_pred             CEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCcCC
Confidence            3999999998 99999999999999999999883      7899999999999999999999999999999999987644

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.26  E-value=3.6e-12  Score=119.60  Aligned_cols=81  Identities=17%  Similarity=0.190  Sum_probs=66.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
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 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDA------RVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGR   85 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            4567899999999999999999999999853321      122223456778999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|.+..
T Consensus        86 ~l~V~~a~   93 (115)
T 2dgo_A           86 QIRTNWAT   93 (115)
T ss_dssp             ECEEEESS
T ss_pred             EEEEEEcc
Confidence            99998544

>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=99.26  E-value=5.4e-12  Score=113.79  Aligned_cols=74  Identities=23%  Similarity=0.368  Sum_probs=62.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccC-Cccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDG-CSFSGS  538 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG-~~l~Gr  538 (943)
                      ...++|||+|||+.+|+++|+++|.+||.++.           .+.+ .++|||||+|.+.++|..|+. ||| ..|.|+
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            45689999999999999999999999985211           1111 368999999999999999999 999 999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|.+..
T Consensus        74 ~l~v~~a~   81 (93)
T 2cqh_A           74 IMEVDYSV   81 (93)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEcc
Confidence            99998543

>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=99.26  E-value=1.1e-11  Score=113.86  Aligned_cols=75  Identities=24%  Similarity=0.382  Sum_probs=64.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee----ecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI----QREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~----~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      ....++|||+|||+.+|+++|+++|..||.+            ..+.+    +.++|||||+|.+.++|..||. |||..
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v------------~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~   79 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKI------------LDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTV   79 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCE------------EEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCe------------EEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            4567899999999999999999999998853            22222    2368999999999999999999 99999


Q ss_pred             cccccccccCCc
Q 002280          535 FSGSILKIKRPK  546 (943)
Q Consensus       535 l~Gr~LkV~rp~  546 (943)
                      |.|+.|.|....
T Consensus        80 ~~g~~l~v~~a~   91 (103)
T 2cq3_A           80 VEGRKIEVNNAT   91 (103)
T ss_dssp             ETTEECEEEECC
T ss_pred             ECCEEEEEEEcc
Confidence            999999998544

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

Probab=99.26  E-value=8.2e-12  Score=116.44  Aligned_cols=73  Identities=34%  Similarity=0.406  Sum_probs=63.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.            |..+.+.  +|||||+|.+.++|..|+. |||..|.|+
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 ELSNTRLFVRPFPLDVQESELNEIFGPFGP------------MKEVKIL--NGFAFVEFEEAESAAKAIEEVHGKSFANQ   93 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSC------------CCEEEEE--TTEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCC------------EEEEEEE--CCEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            456789999999999999999999999884            2333333  8999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        94 ~l~V~~a~  101 (108)
T 2jvo_A           94 PLEVVYSK  101 (108)
T ss_dssp             ECEEESCS
T ss_pred             EEEEEEec
Confidence            99998654

>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=99.26  E-value=5.7e-12  Score=118.39  Aligned_cols=75  Identities=16%  Similarity=0.188  Sum_probs=68.0

Q ss_pred             EEEEEecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC--CCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN--GLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~-~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln--G~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||+. +++++|+++|++||.|..|.|++    ++|||||+|.+.++|.+|+..|+  +..|.|++|.|.+|..
T Consensus        26 ~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~  101 (112)
T 1x4f_A           26 RVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK  101 (112)
T ss_dssp             CEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcc
Confidence            39999999998 99999999999999999999875    58999999999999999999886  4569999999999865


Q ss_pred             CC
Q 002280          628 DG  629 (943)
Q Consensus       628 ~~  629 (943)
                      ..
T Consensus       102 ~~  103 (112)
T 1x4f_A          102 YK  103 (112)
T ss_dssp             CS
T ss_pred             cc
Confidence            44

>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=3.8e-12  Score=118.24  Aligned_cols=82  Identities=13%  Similarity=0.225  Sum_probs=66.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .....+|||+|||+.+|+++|+++|..||..-++..+   ..+.+.. +.++|||||+|.+.++|..||.+|+..|.|+.
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v---~i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~   83 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGI---HFLLNRD-GKRRGDALIEMESEQDVQKALEKHRMYMGQRY   83 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTE---ECCCCTT-STTCSEEEEEBSSHHHHHHHHTTTTCCSSSSC
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceE---EEEECCC-CCEeeEEEEEECCHHHHHHHHHhCcceeCCeE
Confidence            3457899999999999999999999998852111112   2334444 88999999999999999999999999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|.+.
T Consensus        84 i~V~~a   89 (107)
T 2lmi_A           84 VEVYEI   89 (107)
T ss_dssp             CCCEEC
T ss_pred             EEEEEC
Confidence            998753

>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=99.25  E-value=1.7e-11  Score=112.71  Aligned_cols=77  Identities=10%  Similarity=0.206  Sum_probs=70.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+.  ++..|.|+.|.|.++.+.
T Consensus        16 ~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a~~~   93 (103)
T 2cqg_A           16 SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLPNSK   93 (103)
T ss_dssp             CCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECCCTT
T ss_pred             CEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEecCCC
Confidence            38999999999999999999999999999999887  35678999999999999999998  477899999999998764


Q ss_pred             C
Q 002280          629 G  629 (943)
Q Consensus       629 ~  629 (943)
                      .
T Consensus        94 ~   94 (103)
T 2cqg_A           94 Q   94 (103)
T ss_dssp             C
T ss_pred             C
Confidence            4

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.25  E-value=6.9e-12  Score=115.78  Aligned_cols=80  Identities=18%  Similarity=0.140  Sum_probs=66.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
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 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNI------HLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQP   94 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEE------EEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcE
Confidence            446799999999999999999999999853321      122333447789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        95 l~V~~a~  101 (106)
T 1p27_B           95 ISVDWCF  101 (106)
T ss_dssp             CEEEESE
T ss_pred             EEEEeec
Confidence            9998644

>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=2.3e-11  Score=117.06  Aligned_cols=76  Identities=16%  Similarity=0.226  Sum_probs=69.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCE-EEEeecChhHHHHHHHHhCCCccCC--eEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~-aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A~~~  628 (943)
                      .|||+||++.+|+++|+++|++||.|..|.+...   .+|+ |||+|.+.++|.+|+..|||..|.|  +.|+|.++.+.
T Consensus        30 ~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~---~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~  106 (130)
T 3zzy_A           30 RIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  106 (130)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE---TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCS
T ss_pred             EEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC---CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCC
Confidence            8999999999999999999999999999988765   4677 9999999999999999999999987  99999999775


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus       107 ~l  108 (130)
T 3zzy_A          107 SL  108 (130)
T ss_dssp             SC
T ss_pred             ce
Confidence            44

>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=99.25  E-value=3.2e-12  Score=120.17  Aligned_cols=79  Identities=19%  Similarity=0.253  Sum_probs=66.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhc-cCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLS-SGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~-~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|..||.+ ..+      ..+.+. ++.++|||||+|.+.++|..||.+|+..|.|+
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 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAV------HVLVDN-NGQGLGQALVQFKNEDDARKSERLHRKKLNGR   84 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTE------EECCCT-TSSCSSCEEEECSSHHHHHHHGGGCSEEETTE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeE------EEEECC-CCCcceEEEEEECCHHHHHHHHHhCCCccCCe
Confidence            3457899999999999999999999998753 222      122333 68899999999999999999999999999999


Q ss_pred             cccccCC
Q 002280          539 ILKIKRP  545 (943)
Q Consensus       539 ~LkV~rp  545 (943)
                      .|.|.+.
T Consensus        85 ~i~v~~a   91 (114)
T 2cpy_A           85 EAFVHVV   91 (114)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEC
Confidence            9988743

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

Probab=99.25  E-value=6.3e-12  Score=115.66  Aligned_cols=80  Identities=21%  Similarity=0.338  Sum_probs=66.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHh-hhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc-cc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNN-FLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS-FS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~-~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~-l~  536 (943)
                      ..+.++|||+|||+.+|+++|+++|.+ ||.+..+      ..+.+. ++.++|||||+|.+.++|..||. |||.. |.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v------~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~   78 (104)
T 2dhg_A            6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGG------KVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLG   78 (104)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEE------EEEECT-TCCEEEEEEEEESCHHHHHHHHHHTTTCCSSS
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEE------EEEECC-CCCccceEEEEECCHHHHHHHHHHccCCcccC
Confidence            345689999999999999999999999 9864332      122333 67789999999999999999999 99999 99


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |+.|.|....
T Consensus        79 g~~l~v~~a~   88 (104)
T 2dhg_A           79 SKPVRLSVAI   88 (104)
T ss_dssp             SSCCCCCBCC
T ss_pred             CEeEEEEEcc
Confidence            9999998653

>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=99.25  E-value=4e-12  Score=122.46  Aligned_cols=82  Identities=24%  Similarity=0.289  Sum_probs=68.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|.+||. |||..|.|+
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 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADV------SIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR  116 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEE------EEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3557899999999999999999999998853321      122333457889999999999999999999 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      +|.|.....
T Consensus       117 ~l~V~~a~~  125 (129)
T 2kxn_B          117 RIRVDFSIT  125 (129)
T ss_dssp             CCEESCCSS
T ss_pred             EEEEEEecC
Confidence            999986543

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.25  E-value=2.3e-12  Score=118.48  Aligned_cols=81  Identities=26%  Similarity=0.334  Sum_probs=67.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
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 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRI------YLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHL   85 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEE------EEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEE------EEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            3457899999999999999999999998853321      122333457788999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        86 ~l~v~~a~   93 (103)
T 2cq0_A           86 ILNVEWAK   93 (103)
T ss_dssp             ECEEEESS
T ss_pred             EEEEEECC
Confidence            99998544

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

Probab=99.25  E-value=3.5e-12  Score=117.35  Aligned_cols=80  Identities=20%  Similarity=0.279  Sum_probs=66.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|.+|+ +.   .+   ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.
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-IR---SV---RLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRS   84 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EE---EE---EEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ce---EE---EEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeE
Confidence            34578999999999999999999998875 22   22   1334445678899999999999999999999999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        85 l~V~~a~   91 (103)
T 2dng_A           85 LRVDIAE   91 (103)
T ss_dssp             CEEEECC
T ss_pred             EEEEEec
Confidence            9998544

>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=99.25  E-value=4.4e-12  Score=118.05  Aligned_cols=80  Identities=20%  Similarity=0.147  Sum_probs=66.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.
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 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNI------HLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT   97 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEE------ECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            456899999999999999999999999853322      122333457789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        98 l~V~~a~  104 (110)
T 1oo0_B           98 IQVDWCF  104 (110)
T ss_dssp             CEEEESE
T ss_pred             EEEEEcc
Confidence            9998543

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.25  E-value=4.5e-12  Score=116.53  Aligned_cols=79  Identities=22%  Similarity=0.233  Sum_probs=65.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+  ++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v------~i~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   83 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSA------KVMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATK   83 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEE------EEEEC--SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEcC--CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            3467899999999999999999999998853322      11222  56789999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        84 ~l~V~~a~   91 (103)
T 2d9p_A           84 PLYVALAQ   91 (103)
T ss_dssp             BCEEEECS
T ss_pred             EEEEEEec
Confidence            99998544

>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=99.24  E-value=1.3e-11  Score=114.76  Aligned_cols=73  Identities=26%  Similarity=0.343  Sum_probs=62.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc--
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G--  537 (943)
                      ...++|||+|||+.+|+++|+++|.+||.            |..+.+... |||||+|.+.++|..||. |||..|.|  
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            45689999999999999999999999883            444544444 999999999999999999 99999999  


Q ss_pred             ---ccccccCCc
Q 002280          538 ---SILKIKRPK  546 (943)
Q Consensus       538 ---r~LkV~rp~  546 (943)
                         +.|+|....
T Consensus        80 ~~~~~i~V~~a~   91 (108)
T 1x4c_A           80 GETAYIRVKVDG   91 (108)
T ss_dssp             SCEEEEEEEESS
T ss_pred             CcceEEEEEeCC
Confidence               889887543

>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=99.24  E-value=4.3e-12  Score=117.35  Aligned_cols=78  Identities=23%  Similarity=0.253  Sum_probs=65.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+. ++.++|||||+|.+.++|..|+. |||..|.|+.
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 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKA------AVHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDGRP   99 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            456899999999999999999999999853322      122222 56789999999999999999999 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|...
T Consensus       100 l~V~~a  105 (107)
T 3ulh_A          100 MNIQLV  105 (107)
T ss_dssp             CEEEEE
T ss_pred             EEEEEe
Confidence            998753

>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=99.24  E-value=1.2e-11  Score=112.55  Aligned_cols=74  Identities=15%  Similarity=0.089  Sum_probs=62.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH----HHHHhhhhccCcccccCCcceeeeeeecC---CCeeeEEeCCHHHHHHHHH-ccC
Q 002280          461 RPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQRE---KGQAFVEFLTAEDASAALC-CDG  532 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~----elF~~~G~~~g~~~i~~~~~v~~~~~~~s---kGyAFVeF~s~edA~~Al~-LnG  532 (943)
                      ....+|||+|||+.+|+++|+    ++|++||.            |..+.+...   +|||||+|.+.++|..|+. |||
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~------------v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g   74 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHGK------------VKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHR   74 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSC------------EEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccCc------------EEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCC
Confidence            345799999999999999999    99999884            333333211   8999999999999999999 999


Q ss_pred             CccccccccccCCc
Q 002280          533 CSFSGSILKIKRPK  546 (943)
Q Consensus       533 ~~l~Gr~LkV~rp~  546 (943)
                      ..|.|++|+|....
T Consensus        75 ~~~~gr~l~V~~a~   88 (96)
T 2dgx_A           75 YKIGSKKILVSLAT   88 (96)
T ss_dssp             EEETTEEEEEEECC
T ss_pred             CEECCeEEEEEEcC
Confidence            99999999998654

>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=99.24  E-value=2.1e-12  Score=118.43  Aligned_cols=80  Identities=21%  Similarity=0.281  Sum_probs=64.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeee-eeecCCCeeeEEeCCHHHHHHHHHccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC-VIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~-~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|+.|| +..+.      .+.+. .++.++|||||+|.+.++|..||.|||..|.|+
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~------i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~   88 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVR------LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNR   88 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEE------CSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTB
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEE------EEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCe
Confidence            35578999999999999999999999887 44321      22333 367889999999999999999999999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        89 ~l~V~~a~   96 (100)
T 2j76_E           89 RIRVDVAD   96 (100)
T ss_dssp             CCCCEECC
T ss_pred             EEEEEecc
Confidence            99998654

>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=99.24  E-value=1.2e-11  Score=111.57  Aligned_cols=74  Identities=20%  Similarity=0.329  Sum_probs=67.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCC-eeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCC-CccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG-LKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~-I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG-~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||. |..+.+.     ++|||||+|.+.++|.+|+..||| ..|.|+.|.|.++.+..
T Consensus        10 ~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~~   84 (93)
T 2cqh_A           10 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   84 (93)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccCcc
Confidence            8999999999999999999999999 6666553     489999999999999999999999 99999999999997654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        85 ~   85 (93)
T 2cqh_A           85 L   85 (93)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.24  E-value=6.4e-12  Score=117.20  Aligned_cols=79  Identities=23%  Similarity=0.341  Sum_probs=65.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||..+|+++|+++|++||.+..+..+      .  ..+.++|||||+|.+.++|..|+. |||..|.|+
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------F--NERGSKGFGFVTFENSADADRAREKLHGTVVEGR   97 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEEC------C--BTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEE------E--CCCCCceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4567899999999999999999999999864432111      1  123479999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        98 ~l~V~~a~  105 (109)
T 2err_A           98 KIEVNNAT  105 (109)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEECC
Confidence            99998654

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

Probab=99.24  E-value=1.3e-11  Score=111.92  Aligned_cols=76  Identities=13%  Similarity=0.248  Sum_probs=68.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEE-EEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAY-HFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v-~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..| .|+.+..  .|.|||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~--~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           16 RKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE--TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             CCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS--SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCCC
T ss_pred             CEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC--CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCcc
Confidence            389999999999999999999999999999 4766533  344999999999999999999999999999999999775

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.24  E-value=5.2e-12  Score=115.67  Aligned_cols=77  Identities=27%  Similarity=0.404  Sum_probs=66.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+      .   .+.+ .++.++|||||+|.+.++|..||. |||..|.|+
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            4567999999999999999999999988752      1   2222 567889999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        82 ~l~v~~a~   89 (101)
T 2fc9_A           82 AIRLELQG   89 (101)
T ss_dssp             EEEEEECS
T ss_pred             EEEEEEcC
Confidence            99998543

>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=99.24  E-value=5.4e-12  Score=116.30  Aligned_cols=79  Identities=22%  Similarity=0.283  Sum_probs=66.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-ecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .+.++|||+|||+.+|+++|+++|..|| +..+   .   .+.+..+ +.++|||||+|.+.++|..||.|||..|.|+.
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-ISAV---R---LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKR   85 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEE---E---CCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEE---E---EecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcE
Confidence            4568999999999999999999999887 3332   1   3334444 78899999999999999999999999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        86 l~V~~a~   92 (104)
T 1wi8_A           86 IRVDVAD   92 (104)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcc
Confidence            9998543

>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=99.24  E-value=3.2e-12  Score=121.92  Aligned_cols=79  Identities=19%  Similarity=0.311  Sum_probs=67.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.|
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            345799999999999999999999998864331      24455567889999999999999999999999999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      .|.+.
T Consensus        97 ~V~~a  101 (124)
T 1wel_A           97 QVHPI  101 (124)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            88743

>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=99.23  E-value=1.2e-11  Score=112.19  Aligned_cols=78  Identities=24%  Similarity=0.350  Sum_probs=64.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHH----HHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          460 NRPMRRLCVENLPLSASEKALM----EFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~----elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      ..+.++|||+|||+.+|+++|+    ++|++||.+..+         .-..++.++|||||+|.+.++|..|+. |||..
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    999888843221         111346789999999999999999999 99999


Q ss_pred             cccccccccCCc
Q 002280          535 FSGSILKIKRPK  546 (943)
Q Consensus       535 l~Gr~LkV~rp~  546 (943)
                      |.|++|.|....
T Consensus        76 ~~g~~l~v~~a~   87 (97)
T 1nu4_A           76 FYDKPMRIQYAK   87 (97)
T ss_dssp             ETTEECEEEECS
T ss_pred             ECCcEEEEEEcc
Confidence            999999998654

>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=99.23  E-value=2.9e-12  Score=122.24  Aligned_cols=77  Identities=9%  Similarity=0.192  Sum_probs=68.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||+.+++++|+++|+.||.|..+.++.+  ++.++|||||+|.+.++|.+||. |||..|.|+.|.|.+|.+.
T Consensus        26 ~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~~  104 (124)
T 1wel_A           26 FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITKK  104 (124)
T ss_dssp             CEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECHH
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECCHH
Confidence            39999999999999999999999999987444443  55679999999999999999999 9999999999999988653

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.23  E-value=2.9e-12  Score=117.35  Aligned_cols=77  Identities=17%  Similarity=0.214  Sum_probs=68.5

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|+.||.|.. .++.+  ++.++|||||+|.+.++|.+|+. |||..|.|+.|.|.+|.+.
T Consensus        18 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~~   95 (101)
T 1fj7_A           18 FNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKGR   95 (101)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCCC
Confidence            49999999999999999999999998877 33333  46789999999999999999998 9999999999999988664


Q ss_pred             C
Q 002280          629 G  629 (943)
Q Consensus       629 ~  629 (943)
                      .
T Consensus        96 ~   96 (101)
T 1fj7_A           96 D   96 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.23  E-value=2.7e-12  Score=125.37  Aligned_cols=115  Identities=8%  Similarity=0.078  Sum_probs=69.8

Q ss_pred             CeeeEEeCCHHHHHHHHH-ccCCccccccccccC------CccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEe
Q 002280          512 GQAFVEFLTAEDASAALC-CDGCSFSGSILKIKR------PKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV  584 (943)
Q Consensus       512 GyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~r------p~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~  584 (943)
                      |+||.+|..++-+..++. +..+ ..|...--..      .......+|||+|||+.+++++|+++|++|| |..|.|+.
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~-~gg~~~g~~~g~~~~~~~~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~   79 (139)
T 2hgn_A            2 GSSHHHHHHSSGLVPRGSHMASM-TGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEI   79 (139)
T ss_dssp             --------------------------------------------CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCC
T ss_pred             CcccccccCccccchhcccchhc-cCCCCCCCCCCCcccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEE
Confidence            678888888887777765 3322 2222221110      0011122899999999999999999999999 66899887


Q ss_pred             cC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          585 NE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       585 d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +. +.++|||||+|.+.++|.+|| .||+..|.|+.|.|..+.+..
T Consensus        80 d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~~  124 (139)
T 2hgn_A           80 GPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTG  124 (139)
T ss_dssp             SSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCSC
T ss_pred             CCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCCC
Confidence            74 567999999999999999999 799999999999998876543

>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=99.23  E-value=4.7e-12  Score=123.18  Aligned_cols=82  Identities=23%  Similarity=0.269  Sum_probs=66.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .....+|||+|||+.+|+++|+++|++||.+.++..+   ..+.+.. ++++|||||+|.+.++|.+||.|||..|.|+.
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 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGV---HFIYTRE-GRQSGEAFVELGSEDDVKMALKKDRESMGHRY  116 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTE---EEEECSS-SCEEEEEEEECSSHHHHHHHHTTTEEESSSSE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEE---EEEECCC-CCCCeEEEEEECCHHHHHHHHhcCCCEECCEE
Confidence            3457899999999999999999999998852111111   1333444 88999999999999999999999999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|...
T Consensus       117 i~V~~a  122 (136)
T 2hgl_A          117 IEVFKS  122 (136)
T ss_dssp             EEEEEC
T ss_pred             EEEEEC
Confidence            988643

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=1.9e-11  Score=109.50  Aligned_cols=73  Identities=21%  Similarity=0.318  Sum_probs=63.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.            |..+.+.  ++||||+|.+.++|..|+. |||..|.|+
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            356789999999999999999999999984            3444443  6699999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        72 ~l~v~~a~   79 (90)
T 2dnp_A           72 RINVELST   79 (90)
T ss_dssp             ECEEEESC
T ss_pred             EEEEEECC
Confidence            99998544

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=4.9e-12  Score=115.96  Aligned_cols=78  Identities=24%  Similarity=0.316  Sum_probs=65.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|..|+.      +   ..+.+..++.++|||||+|.+.++|..||. |||..|.|+
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            456789999999999999999999986532      1   133444567889999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|...+
T Consensus        83 ~l~V~~a~   90 (102)
T 2fc8_A           83 KVTLDWAK   90 (102)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEec
Confidence            99998544

>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=99.23  E-value=3e-11  Score=120.60  Aligned_cols=78  Identities=15%  Similarity=0.215  Sum_probs=70.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCC--eEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A~~~  628 (943)
                      .+|||+||++.+++++|+++|++||.|..|.|...  ..+|||||+|.+.++|.+|+..|||..|.|  +.|.|.++.+.
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k--~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  124 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEES--SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeC--CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCC
Confidence            38999999999999999999999999999998653  257899999999999999999999999955  99999999876


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus       125 ~l  126 (164)
T 1sjr_A          125 SL  126 (164)
T ss_dssp             SC
T ss_pred             cc
Confidence            43

>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=99.23  E-value=5.3e-12  Score=116.05  Aligned_cols=79  Identities=24%  Similarity=0.375  Sum_probs=65.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|
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 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSF------RLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL   80 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEE------EEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCB
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEE------EEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEE
Confidence            35799999999999999999999999853321      122333457789999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|....
T Consensus        81 ~v~~a~   86 (104)
T 1p1t_A           81 RVDNAA   86 (104)
T ss_dssp             EEEETT
T ss_pred             EEEeCC
Confidence            998544

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.22  E-value=7.4e-12  Score=117.15  Aligned_cols=79  Identities=18%  Similarity=0.118  Sum_probs=65.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+.      .+.+ ..+.++|||||+|.+.++|..||. |||..|.|+
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------ILED-KDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDR   84 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEE------EEEC-TTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEE------EEEC-CCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCC
Confidence            45678999999999999999999999988533221      1122 236678999999999999999999 999999999


Q ss_pred             cccccCC
Q 002280          539 ILKIKRP  545 (943)
Q Consensus       539 ~LkV~rp  545 (943)
                      .|.|...
T Consensus        85 ~l~v~~a   91 (114)
T 2do0_A           85 PMHVKMD   91 (114)
T ss_dssp             ECEEEEC
T ss_pred             EEEEEEc
Confidence            9999743

>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=99.22  E-value=1.2e-11  Score=116.63  Aligned_cols=72  Identities=11%  Similarity=0.072  Sum_probs=65.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE-----EEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-----LTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~-----L~V~~A  625 (943)
                      .+|||+|||+.+++++|+++|++||.|..|.|+.+     |||||+|.+.++|.+||..|||..|.|+.     |.|..+
T Consensus        17 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~   91 (115)
T 3beg_B           17 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   91 (115)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-----CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccC
Confidence            38999999999999999999999999999998765     99999999999999999999999999988     777766


Q ss_pred             cc
Q 002280          626 VL  627 (943)
Q Consensus       626 ~~  627 (943)
                      .+
T Consensus        92 ~~   93 (115)
T 3beg_B           92 GP   93 (115)
T ss_dssp             C-
T ss_pred             CC
Confidence            54

>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=99.22  E-value=8.1e-12  Score=119.10  Aligned_cols=80  Identities=18%  Similarity=0.140  Sum_probs=66.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+.
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 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNI------HLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQP   93 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEE------ECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            456799999999999999999999999853322      122333467789999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        94 l~v~~a~  100 (126)
T 3ex7_B           94 ISVDWCF  100 (126)
T ss_dssp             CEEEESE
T ss_pred             EEEEEec
Confidence            9998543

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.22  E-value=3.2e-12  Score=120.20  Aligned_cols=79  Identities=20%  Similarity=0.365  Sum_probs=66.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||.+++..|.|+.|.
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 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDC------VVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVE   99 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEE------EEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEE
Confidence            35799999999999999999999998864332      122333457789999999999999999999999999999999


Q ss_pred             ccCCc
Q 002280          542 IKRPK  546 (943)
Q Consensus       542 V~rp~  546 (943)
                      |.+..
T Consensus       100 V~~a~  104 (116)
T 1x4b_A          100 PKRAV  104 (116)
T ss_dssp             EECCS
T ss_pred             EEECC
Confidence            98654

>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=99.22  E-value=1.1e-11  Score=121.13  Aligned_cols=77  Identities=17%  Similarity=0.211  Sum_probs=69.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEE--------EEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAY--------HFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v--------~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|||+|||+.+++++|+++|++||.|..+        .+. .++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus        47 ~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~-~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~  125 (143)
T 3egn_A           47 RIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLM-KEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQ  125 (143)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEE-EETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEec-cCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            99999999999999999999999998763        222 356789999999999999999999999999999999999


Q ss_pred             EcccCC
Q 002280          624 QAVLDG  629 (943)
Q Consensus       624 ~A~~~~  629 (943)
                      +|.+..
T Consensus       126 ~a~~~~  131 (143)
T 3egn_A          126 FARSAR  131 (143)
T ss_dssp             ECCCSC
T ss_pred             ECCCCC
Confidence            986643

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

Probab=99.22  E-value=2.1e-11  Score=110.23  Aligned_cols=74  Identities=22%  Similarity=0.351  Sum_probs=65.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|  +.+...++ ||||+|.+.++|.+|+. |||..|.|+.|.|.++.+..
T Consensus        10 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~-~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~~   83 (94)
T 2e5g_A           10 SVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGV-FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQKE   83 (94)
T ss_dssp             EEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCC-EEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCSC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCc-EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcCC
Confidence            89999999999999999999999999987  34433334 99999999999999999 99999999999998775543

>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=1.6e-11  Score=112.52  Aligned_cols=79  Identities=14%  Similarity=0.337  Sum_probs=71.5

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      ..+|||+|||..+++++|+++|+.||.|..|.|+.+. +.++|||||+|.+.++|.+|+.  +|..|.|+.|.|.++.+.
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            3499999999999999999999999999999998884 4568999999999999999998  999999999999998765


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus        87 ~~   88 (102)
T 2xs2_A           87 QN   88 (102)
T ss_dssp             C-
T ss_pred             cc
Confidence            43

>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=99.22  E-value=2.2e-11  Score=108.86  Aligned_cols=72  Identities=15%  Similarity=0.245  Sum_probs=67.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++| .|..+.+.    .++|||||+|.+.++|.+|+..|||..+.|+.|.|.+|...
T Consensus         7 ~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   78 (88)
T 1wg1_A            7 GILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCC
Confidence            89999999999999999999999 99999885    47899999999999999999999999999999999988543

>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=99.22  E-value=4.5e-12  Score=117.80  Aligned_cols=76  Identities=16%  Similarity=0.177  Sum_probs=70.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCC---eeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGP---LKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~---I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||.   |..|.|+.+. +.++|||||+|.+.++|.+||. |||..|+|+.|.|.++.+
T Consensus        13 ~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a~~   91 (107)
T 2lmi_A           13 LIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEINN   91 (107)
T ss_dssp             EEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEECCH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEECCH
Confidence            8999999999999999999999998   8899998774 5679999999999999999999 999999999999998865


Q ss_pred             C
Q 002280          628 D  628 (943)
Q Consensus       628 ~  628 (943)
                      .
T Consensus        92 ~   92 (107)
T 2lmi_A           92 E   92 (107)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.22  E-value=1.9e-11  Score=113.33  Aligned_cols=80  Identities=16%  Similarity=0.168  Sum_probs=65.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhh-ccCcccccCCcce-eeeeeecCCCeeeEEeCCHHHHHHHHH-cc--CCcc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLL-SSGVQHVHGSLPC-IGCVIQREKGQAFVEFLTAEDASAALC-CD--GCSF  535 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~-~~g~~~i~~~~~v-~~~~~~~skGyAFVeF~s~edA~~Al~-Ln--G~~l  535 (943)
                      ...++|||+|||+.+|+++|+++|..||. +..+.      .+ .+..++.++|||||+|.+.++|..|+. |+  +..|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~------i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~   79 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVI------VYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQL   79 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEE------CCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCB
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEE------EEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCcee
Confidence            45689999999999999999999999984 33221      11 233456889999999999999999999 85  5999


Q ss_pred             ccccccccCCc
Q 002280          536 SGSILKIKRPK  546 (943)
Q Consensus       536 ~Gr~LkV~rp~  546 (943)
                      .|+.|+|..+.
T Consensus        80 ~g~~l~V~~a~   90 (109)
T 2dis_A           80 WGHQIAVDWAE   90 (109)
T ss_dssp             TTBCCEEEESC
T ss_pred             cCCeEEEEEcC
Confidence            99999998544

>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=99.22  E-value=6.8e-12  Score=115.93  Aligned_cols=79  Identities=19%  Similarity=0.278  Sum_probs=65.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|.+||.+..  .+   ..+.+ .++.++|||||+|.+.++|..||.+|+..|.|+.|
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--GM---TLPVD-FQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYI   86 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEE--EE---ECCBC-SSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcce--eE---EEEEC-CCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEE
Confidence            45689999999999999999999999885321  01   12233 57889999999999999999999999999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      .|...
T Consensus        87 ~v~~~   91 (104)
T 1wg5_A           87 EIFKS   91 (104)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            88743

>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=99.22  E-value=4.1e-12  Score=146.71  Aligned_cols=82  Identities=10%  Similarity=0.060  Sum_probs=71.6

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTN  730 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~LnG  730 (943)
                      ..++++|+|.||....+.            ++|+++|++||.|+.|.|+.+ .++..+|||||+|.+.++|.+||.+|||
T Consensus        99 ~~~~~~lfV~nL~~~~te------------~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng  166 (437)
T 3pgw_S           99 GDAFKTLFVARVNYDTTE------------SKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADG  166 (437)
T ss_pred             CCCCCEEEEeCCCCCCCH------------HHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCC
Confidence            356789999999653332            688999999999999999987 4778899999999999999999999999


Q ss_pred             CccCCCceEEEEecc
Q 002280          731 DETNEKGERLEEVTD  745 (943)
Q Consensus       731 r~~~~k~~~v~~~~~  745 (943)
                      ..|+++.|.|..+..
T Consensus       167 ~~i~gr~i~V~~a~~  181 (437)
T 3pgw_S          167 KKIDGRRVLVDVERG  181 (437)
T ss_pred             CEECCEEEEEEEeCC
Confidence            999999999988754

>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=99.22  E-value=1.2e-11  Score=120.64  Aligned_cols=86  Identities=23%  Similarity=0.261  Sum_probs=69.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..+.++|||+|||+.+|+++|+++|..||.+..+.. .....+....++.++|||||+|.+.++|..||. |||..|.|+
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~-~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~  120 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQ-RIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGK  120 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHH-HHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccc-cceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCc
Confidence            356789999999999999999999999996543210 000013334678999999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|.|..+.
T Consensus       121 ~l~V~~a~  128 (143)
T 3egn_A          121 PMVVQFAR  128 (143)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEECC
Confidence            99998654

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.22  E-value=2.9e-11  Score=110.39  Aligned_cols=75  Identities=31%  Similarity=0.351  Sum_probs=63.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.  |        .|..+.+  .+|||||+|.+.++|..||. |||..|.|+
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        3444433  48899999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        80 ~l~v~~a~   87 (99)
T 2cpd_A           80 PIEVTLAK   87 (99)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEECC
Confidence            99998654

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=5.6e-12  Score=116.31  Aligned_cols=81  Identities=15%  Similarity=0.224  Sum_probs=67.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..||..|+..|.|+.
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 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDC------VIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRN   86 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEE------EEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEE
Confidence            4567899999999999999999999999853322      1223334577889999999999999999999999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|.+..
T Consensus        87 l~V~~a~   93 (105)
T 2dh8_A           87 IDPKPCT   93 (105)
T ss_dssp             EBCCCSC
T ss_pred             EEEEEcc
Confidence            9998654

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

Probab=99.21  E-value=1.9e-11  Score=124.24  Aligned_cols=78  Identities=14%  Similarity=0.225  Sum_probs=72.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.||.|..|.|+.+. +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        90 ~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~~~~  168 (177)
T 2f3j_A           90 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQI  168 (177)
T ss_dssp             EEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEESSGG
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEecCCC
Confidence            99999999999999999999999999999998874 5679999999999999999999999999999999999986543

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.21  E-value=4.5e-11  Score=114.33  Aligned_cols=75  Identities=17%  Similarity=0.151  Sum_probs=68.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCE-EEEeecChhHHHHHHHHhCCCccCC--eEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC-AFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~-aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A~~~  628 (943)
                      .|||+||++.+++++|+++|++||.|..|.|...    .|| |||+|.+.++|..|+..|||..|.|  +.|.|.+|.+.
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~  102 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPT  102 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCS
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCC
Confidence            7899999999999999999999999999998653    386 9999999999999999999999977  69999999775


Q ss_pred             CC
Q 002280          629 GS  630 (943)
Q Consensus       629 ~~  630 (943)
                      ..
T Consensus       103 ~l  104 (124)
T 2e5i_A          103 RL  104 (124)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=1.3e-11  Score=115.93  Aligned_cols=80  Identities=14%  Similarity=0.216  Sum_probs=66.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|.+||. |++ .|.|+
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 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEA------VVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGR   86 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEE------EESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEE------EEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCE
Confidence            4567899999999999999999999999853322      122333457789999999999999999999 888 89999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
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

>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=99.21  E-value=3.5e-12  Score=117.73  Aligned_cols=76  Identities=28%  Similarity=0.291  Sum_probs=64.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ...++|||+|||+.+|+++|+++|.+||. ..   +   ..+.+. +++++|||||+|.+.++|.+||.+|+..|.|+.|
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---V---HIEIGP-DGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV   84 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCC-SE---E---EEEESS-SSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eE---E---EEEECC-CCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEE
Confidence            44689999999999999999999998873 22   1   133443 7889999999999999999999999999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      .|..
T Consensus        85 ~V~~   88 (102)
T 1wez_A           85 ELFL   88 (102)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8874

>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=99.21  E-value=7e-12  Score=117.53  Aligned_cols=77  Identities=19%  Similarity=0.223  Sum_probs=65.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|..||.+..+      ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.|.
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v------~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~   97 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDV------RIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPII   97 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEE------EECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEE------EEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEE
Confidence            45899999999999999999999998853332      122334457889999999999999999999999999999999


Q ss_pred             ccC
Q 002280          542 IKR  544 (943)
Q Consensus       542 V~r  544 (943)
                      |..
T Consensus        98 V~~  100 (114)
T 2cq4_A           98 VQA  100 (114)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            974

>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=99.21  E-value=2.1e-11  Score=113.56  Aligned_cols=71  Identities=24%  Similarity=0.407  Sum_probs=62.4

Q ss_pred             CCCeEEEcCCCCC-CCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          462 PMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       462 ~~rtLfVgNLP~~-vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ..++|||+|||+. +|+++|+++|.+||.            |..+.+  ++|||||+|.+.++|..|+. |||..|.|+.
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            4589999999999 999999999999884            333444  68999999999999999997 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        92 l~V~~a~   98 (110)
T 1wf1_A           92 LDINMAG   98 (110)
T ss_dssp             CCEEESC
T ss_pred             EEEEECC
Confidence            9998644

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=9e-12  Score=111.85  Aligned_cols=78  Identities=23%  Similarity=0.393  Sum_probs=64.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ...++|||+|||+.+|+++|+++|..| .+..   +   ..+.+ .++.++|||||+|.+.++|..||.|||..|.|+.|
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---I---RIVRN-AHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYI   79 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSE---E---EEEEC-TTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceE---E---EEEEC-CCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEE
Confidence            456899999999999999999999887 4322   1   12233 56788999999999999999999999999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|....
T Consensus        80 ~v~~a~   85 (91)
T 2dgw_A           80 EVFREK   85 (91)
T ss_dssp             EEEEES
T ss_pred             EEEECC
Confidence            987543

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=5.4e-11  Score=108.20  Aligned_cols=73  Identities=21%  Similarity=0.358  Sum_probs=67.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+||  .+++++|+++|++||.|..|.|.    .++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+...
T Consensus        17 ~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~~~~   89 (97)
T 1x5p_A           17 TLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQPM   89 (97)
T ss_dssp             EEEEECS--SCCHHHHHHHHTTTSCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSCCC
T ss_pred             EEEEcCC--CCCHHHHHHHHhhCCCEEEEEec----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCCC
Confidence            9999996  89999999999999999999884    4689999999999999999999999999999999999876543

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

Probab=99.21  E-value=5.7e-12  Score=109.21  Aligned_cols=74  Identities=16%  Similarity=0.296  Sum_probs=62.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      ++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. ++ ..|.|++|.|
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 CKMFIGGLSWQTTQEGLREYFGQFGEVKEC------LVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDP   73 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCE------EEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEE
Confidence            479999999999999999999999864332      122333567889999999999999999999 77 9999999988


Q ss_pred             cC
Q 002280          543 KR  544 (943)
Q Consensus       543 ~r  544 (943)
                      .+
T Consensus        74 ~~   75 (77)
T 1uaw_A           74 KV   75 (77)
T ss_dssp             EE
T ss_pred             Ee
Confidence            64

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=2.3e-11  Score=109.53  Aligned_cols=73  Identities=26%  Similarity=0.392  Sum_probs=62.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.            |..+.+.  ++||||+|.+.++|..|+. |||..|.|+
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 GKASTKLHVGNISPTCTNQELRAKFEEYGP------------VIECDIV--KDYAFVHMERAEDAVEAIRGLDNTEFQGK   72 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTSC------------CCEEEEC--SSEEEEEESCHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCC------------eEEEEEE--CCEEEEEECCHHHHHHHHHHhCCCeeCCc
Confidence            355789999999999999999999999884            3333332  5699999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|....
T Consensus        73 ~l~V~~a~   80 (92)
T 2dgt_A           73 RMHVQLST   80 (92)
T ss_dssp             EEEEEESS
T ss_pred             EEEEEEcc
Confidence            99998644

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.20  E-value=1.9e-11  Score=114.08  Aligned_cols=82  Identities=15%  Similarity=0.227  Sum_probs=63.6

Q ss_pred             cCCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccc
Q 002280          459 SNRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (943)
Q Consensus       459 ~~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr  538 (943)
                      .....++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||..++..|.|+
T Consensus        21 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v------~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~   94 (109)
T 2rs2_A           21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKEC------LVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSK   94 (109)
T ss_dssp             -----CCEEEESCCTTCCHHHHHHHHTTTSCEEEE------EECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEE------EEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCE
Confidence            34567899999999999999999999999853322      122333457889999999999999999999556999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|.|....
T Consensus        95 ~l~V~~a~  102 (109)
T 2rs2_A           95 TIDPKVAF  102 (109)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEcc
Confidence            99987543

>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=99.20  E-value=2.7e-11  Score=111.45  Aligned_cols=72  Identities=24%  Similarity=0.260  Sum_probs=62.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.            |..+.+.  ++||||+|.+.++|..||. |||..|.|+.
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            45689999999999999999999999984            3333332  7799999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        75 l~v~~a~   81 (103)
T 2dgu_A           75 IEIVFAK   81 (103)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9998543

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

Probab=99.20  E-value=2.2e-11  Score=110.65  Aligned_cols=72  Identities=21%  Similarity=0.285  Sum_probs=61.7

Q ss_pred             CCCCCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          460 NRPMRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       460 ~~~~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ..+.++|||+|||+ .+|+++|+++|++||.            |..+.+  .+|||||+|.+.++|..|+. |||..|.|
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 9999999999999884            333333  38999999999999999999 99999999


Q ss_pred             ccccccCC
Q 002280          538 SILKIKRP  545 (943)
Q Consensus       538 r~LkV~rp  545 (943)
                      ++|+|...
T Consensus        73 ~~l~V~~a   80 (96)
T 2kvi_A           73 KKLILEVS   80 (96)
T ss_dssp             TTBCEEEE
T ss_pred             cEEEEEEc
Confidence            99999854

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.20  E-value=7.7e-12  Score=113.36  Aligned_cols=75  Identities=25%  Similarity=0.351  Sum_probs=65.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|..||.+.         .+  ..++.++|||||+|.+.++|..|+. |||..|.|++
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---------LV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRS   82 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEEC---------CE--EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEE---------Ee--CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            4568999999999999999999999887421         12  4667889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        83 l~v~~a~   89 (96)
T 1fjc_A           83 VSLYYTG   89 (96)
T ss_dssp             EEEEECS
T ss_pred             EEEEEcC
Confidence            9998654

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.20  E-value=3.6e-11  Score=109.40  Aligned_cols=73  Identities=21%  Similarity=0.229  Sum_probs=65.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+||  .+|+++|+++|.+||            .|..+.++.++|||||+|.+.++|..||. |||..|.|+
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            346789999996  899999999999988            55677778899999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|.+..
T Consensus        78 ~l~v~~a~   85 (97)
T 1x5p_A           78 QLKVNIAR   85 (97)
T ss_dssp             EEEEECCS
T ss_pred             EEEEEECC
Confidence            99998654

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

Probab=99.20  E-value=3.2e-11  Score=116.68  Aligned_cols=79  Identities=25%  Similarity=0.301  Sum_probs=66.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|.+|+. |||..|.|+
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 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDI------QIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGR  133 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEE------ECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEE------EEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3567899999999999999999999999853332      122333457889999999999999999998 999999999


Q ss_pred             cccccC
Q 002280          539 ILKIKR  544 (943)
Q Consensus       539 ~LkV~r  544 (943)
                      .|+|..
T Consensus       134 ~l~v~~  139 (140)
T 2ku7_A          134 TIRVNL  139 (140)
T ss_dssp             EEEEEC
T ss_pred             EEEEEe
Confidence            999864

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

Probab=99.20  E-value=3.7e-11  Score=108.63  Aligned_cols=74  Identities=23%  Similarity=0.343  Sum_probs=61.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCC-eeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG-QAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skG-yAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+            ..+......| ||||+|.+.++|..||.|||..|.|+.
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v------------~~v~~~~~~g~~afV~f~~~~~a~~ai~l~g~~~~g~~   73 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPV------------ASVVMDKDKGVFAIVEMGDVGAREAVLSQSQHSLGGHR   73 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCE------------EEEEECSSSCCEEEEEESSHHHHHHHHTCSCCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCe------------EEEEEcCCCCcEEEEEECCHHHHHHHHhcCCeEECCEE
Confidence            456899999999999999999999998843            2232221111 999999999999999999999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        74 l~V~~a~   80 (94)
T 2e5g_A           74 LRVRPRE   80 (94)
T ss_dssp             CCCBCSC
T ss_pred             EEEEECC
Confidence            9998644

>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=99.19  E-value=3.1e-11  Score=113.59  Aligned_cols=73  Identities=19%  Similarity=0.291  Sum_probs=66.3

Q ss_pred             EEEEE--ecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc-----CCeEEEEE
Q 002280          551 VAIFI--GGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-----GGQVLTAV  623 (943)
Q Consensus       551 ~~LfV--~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~-----~gr~L~V~  623 (943)
                      .+|||  +||+..+++++|+++|++||.|..|.|+.    ++|||||+|.+.++|.+|+..|||..|     .|++|.|.
T Consensus        26 ~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~----~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~  101 (114)
T 2cq2_A           26 QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN  101 (114)
T ss_dssp             SEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             CEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEE
Confidence            38999  77999999999999999999999988754    489999999999999999999999988     68899999


Q ss_pred             Eccc
Q 002280          624 QAVL  627 (943)
Q Consensus       624 ~A~~  627 (943)
                      ++..
T Consensus       102 ~a~~  105 (114)
T 2cq2_A          102 FVEK  105 (114)
T ss_dssp             EESC
T ss_pred             eccc
Confidence            8853

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.19  E-value=1.1e-11  Score=118.39  Aligned_cols=82  Identities=22%  Similarity=0.239  Sum_probs=65.8

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .....+|||+|||+.+|+++|+++|++||.+.+  .+..+..+.+ .+++++|||||+|.+.++|.+||.+|+..|.|+.
T Consensus        20 ~~~~~~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           20 KENQVIVRMRGLPFTATAEEVVAFFGQHCPITG--GKEGILFVTY-PDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRY   96 (123)
T ss_dssp             CCSCCEEEECSCCTTCCHHHHHHHHHTTSCCTT--GGGGEEEEEC-TTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCccC--CcceEEEEEC-CCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeE
Confidence            355789999999999999999999999985321  1111112333 4688999999999999999999999999999999


Q ss_pred             ccccC
Q 002280          540 LKIKR  544 (943)
Q Consensus       540 LkV~r  544 (943)
                      |.|..
T Consensus        97 i~V~~  101 (123)
T 2dha_A           97 IELFR  101 (123)
T ss_dssp             ECCEE
T ss_pred             EEEEE
Confidence            88753

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.18  E-value=1.3e-11  Score=118.00  Aligned_cols=75  Identities=12%  Similarity=0.189  Sum_probs=68.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCe----eEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPL----KAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I----~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+|||+.+++++|+++|++||.|    ..|.|+.+ ++.++|||||+|.+.++|.+||.. |+..|+|+.|.|..+.
T Consensus        25 ~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a~  103 (123)
T 2dha_A           25 IVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRST  103 (123)
T ss_dssp             EEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEECC
Confidence            89999999999999999999999986    57888877 456799999999999999999985 9999999999998875


Q ss_pred             c
Q 002280          627 L  627 (943)
Q Consensus       627 ~  627 (943)
                      +
T Consensus       104 ~  104 (123)
T 2dha_A          104 A  104 (123)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.18  E-value=4.1e-11  Score=108.06  Aligned_cols=70  Identities=17%  Similarity=0.198  Sum_probs=59.2

Q ss_pred             CCCe-EEEcCCCCCCCHHHHH----HHHHhhh-hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          462 PMRR-LCVENLPLSASEKALM----EFLNNFL-LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       462 ~~rt-LfVgNLP~~vTEedL~----elF~~~G-~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      +..| |||+|||+.+++++|+    ++|.+|| .            |+++ ++   |+|||+|.+.++|+.|+. |||..
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            4556 9999999999999854    8998884 4            3444 22   999999999999999999 99999


Q ss_pred             cccccccccCCcc
Q 002280          535 FSGSILKIKRPKE  547 (943)
Q Consensus       535 l~Gr~LkV~rp~d  547 (943)
                      |.|++|+|..++.
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            9999999987664

>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=99.18  E-value=5e-12  Score=113.20  Aligned_cols=76  Identities=25%  Similarity=0.357  Sum_probs=63.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      ++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.+ |..|+. |||..|.|+.|+|
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 RNIYVGNLVYSATSEQVKELFSQFGKVFNV------KLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRV   74 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEE------EECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEE------EEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEE
Confidence            589999999999999999999999864332      12233345788999999999999 999999 9999999999999


Q ss_pred             cCCc
Q 002280          543 KRPK  546 (943)
Q Consensus       543 ~rp~  546 (943)
                      ..+.
T Consensus        75 ~~a~   78 (90)
T 2ki2_A           75 TEAN   78 (90)
T ss_dssp             EEC-
T ss_pred             EEcC
Confidence            8654

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.18  E-value=6.4e-11  Score=108.65  Aligned_cols=86  Identities=7%  Similarity=0.024  Sum_probs=74.7

Q ss_pred             CceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCC-CCcceeEEEEeCCHHHHHHHHHHhCCCc
Q 002280          654 PTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-SNISTIQACEGNENTASAGVGQNLTNDE  732 (943)
Q Consensus       654 ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~-g~~~G~~FVeF~~~e~A~~Ai~~LnGr~  732 (943)
                      ..++|+|.||..      +++..+..+.++|+++|++||.|.+|.|+.+.. |..+|||||+|.+.++|.+|+..|||..
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 SDQYIVVNGAPV------IPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKR   78 (100)
T ss_dssp             GGGEEEEESCCC------CBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             cCcEEEEeCCCc------CChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcc
Confidence            467899999965      234456667789999999999999999998854 8899999999999999999999999999


Q ss_pred             cCC-CceEEEEecc
Q 002280          733 TNE-KGERLEEVTD  745 (943)
Q Consensus       733 ~~~-k~~~v~~~~~  745 (943)
                      |.+ +.+.|.....
T Consensus        79 ~~g~r~l~V~~a~~   92 (100)
T 3ns6_A           79 LDLKHRLFLYTMKD   92 (100)
T ss_dssp             SSSSCBCEEEESHH
T ss_pred             cCCCeEEEEEECch
Confidence            999 9999987643

>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=99.18  E-value=4.3e-11  Score=106.13  Aligned_cols=68  Identities=24%  Similarity=0.451  Sum_probs=64.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhc----C-------CeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAF----G-------PLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~f----G-------~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|||+|||..+++++|+++|++|    |       .|..+.+..+    +|||||+|.+.++|.+|+ .|||..|.|+.|
T Consensus         8 ~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~----kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l   82 (87)
T 2hzc_A            8 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD----KNFAFLEFRSVDETTQAM-AFDGIIFQGQSL   82 (87)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS----SSEEEEEESSHHHHHHHG-GGTTCEETTEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC----CcEEEEEcCCHHHHHHHH-hcCCCEECCeEE
Confidence            89999999999999999999999    8       8999988654    899999999999999999 999999999999


Q ss_pred             EEEE
Q 002280          621 TAVQ  624 (943)
Q Consensus       621 ~V~~  624 (943)
                      .|.+
T Consensus        83 ~V~r   86 (87)
T 2hzc_A           83 KIRR   86 (87)
T ss_dssp             EEEC
T ss_pred             EEeC
Confidence            9974

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.18  E-value=3.1e-11  Score=110.54  Aligned_cols=76  Identities=13%  Similarity=0.188  Sum_probs=67.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|+.|+   .|.++.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        17 ~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~   93 (102)
T 2fc8_A           17 TLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPKG   93 (102)
T ss_dssp             SEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             EEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCCC
Confidence            899999999999999999999885   4555555  45668999999999999999999999999999999999997754


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        94 ~   94 (102)
T 2fc8_A           94 E   94 (102)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.18  E-value=3.1e-11  Score=119.62  Aligned_cols=81  Identities=19%  Similarity=0.267  Sum_probs=67.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. ||+..|.|+
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 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKI------IMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDR  109 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3567899999999999999999999999853321      122333457788999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|.++.
T Consensus       110 ~l~V~~a~  117 (156)
T 1h2v_Z          110 IIRTDWDA  117 (156)
T ss_dssp             ECEEEEES
T ss_pred             EEEEEECC
Confidence            99998654

>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=99.18  E-value=2.2e-11  Score=111.92  Aligned_cols=80  Identities=23%  Similarity=0.235  Sum_probs=65.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..||. ++..|.|+.
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 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMV------QVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRW   84 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEE------EEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEE
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEE------EEEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeE
Confidence            3557899999999999999999999999853322      122333457889999999999999999999 577899999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus        85 l~v~~a~   91 (103)
T 2cqg_A           85 CDCKLPN   91 (103)
T ss_dssp             EEEECCC
T ss_pred             EEEEecC
Confidence            9998654

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.17  E-value=1.1e-11  Score=117.83  Aligned_cols=79  Identities=19%  Similarity=0.263  Sum_probs=66.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||.|||..|.|+.|.
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 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRI------TILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIK  108 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTSCEEEE------EEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEE
Confidence            35799999999999999999999999853321      122333467889999999999999999999999999999999


Q ss_pred             ccCCc
Q 002280          542 IKRPK  546 (943)
Q Consensus       542 V~rp~  546 (943)
                      |....
T Consensus       109 V~~a~  113 (124)
T 2jwn_A          109 VLPKR  113 (124)
T ss_dssp             EEESS
T ss_pred             EEECC
Confidence            98654

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

Probab=98.79  E-value=2.5e-12  Score=121.09  Aligned_cols=79  Identities=16%  Similarity=0.256  Sum_probs=72.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE--------EEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~--------v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      +|||+|||..+++++|+++|++||.|..        |.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.
T Consensus         9 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   88 (116)
T 2lcw_A            9 TIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIK   88 (116)
Confidence            8999999999999999999999999998        888776  356799999999999999999999999999999999


Q ss_pred             EEEcccCCC
Q 002280          622 AVQAVLDGS  630 (943)
Q Consensus       622 V~~A~~~~~  630 (943)
                      |.+|.+...
T Consensus        89 V~~a~~~~~   97 (116)
T 2lcw_A           89 VSFATRRAD   97 (116)
Confidence            999876544

>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=1.4e-11  Score=118.22  Aligned_cols=79  Identities=15%  Similarity=0.238  Sum_probs=63.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|++|+. . ...+   ..+.+.. |+++|||||+|.+.++|.+||.+++..|.|+.|
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 ANDGFVRLRGLPFGCTKEEIVQFFSGLEI-V-PNGI---TLPVDPE-GKITGEAFVQFASQELAEKALGKHKERIGHRYI  113 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTSCE-E-EEEE---ECCCCSS-SSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCc-e-eeEE---EEEECCC-CCCceEEEEEECCHHHHHHHHHHCCCEECCEEE
Confidence            45679999999999999999999988742 1 0011   1333434 889999999999999999999988899999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      .|...
T Consensus       114 ~V~~a  118 (126)
T 2hgm_A          114 EVFKS  118 (126)
T ss_dssp             CCEEE
T ss_pred             EEEEC
Confidence            98753

>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=99.17  E-value=5.3e-11  Score=106.97  Aligned_cols=71  Identities=17%  Similarity=0.364  Sum_probs=61.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCc--cCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLK--VGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~--~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+   ++|||||+|.+.++|.+    |+|..  +.|+.|.|.+|.+..
T Consensus        13 ~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~---srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~a~~k~   85 (89)
T 3d2w_A           13 KVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP---FRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISNAEPKH   85 (89)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS---CCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEECC---
T ss_pred             EEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC---CCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEEcCCCC
Confidence            9999999999999999999999999999999875   89999999999999873    56655  469999999987643

>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=99.17  E-value=1.6e-11  Score=114.78  Aligned_cols=81  Identities=19%  Similarity=0.215  Sum_probs=64.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHH---HHHHhhhhccCcccccCCcceeeeee---ecCCCeeeEEeCCHHHHHHHHH-ccCC
Q 002280          461 RPMRRLCVENLPLSASEKALM---EFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGC  533 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~---elF~~~G~~~g~~~i~~~~~v~~~~~---~~skGyAFVeF~s~edA~~Al~-LnG~  533 (943)
                      ...++|||+|||+.+|+++|+   ++|.+||.+..+.      .+.+..+   +.++|||||+|.+.++|..||. |||.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~------i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~   86 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVV------INNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNV   86 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEE------EECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEE------EecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCC
Confidence            346799999999999999999   9999998533321      1111122   2456899999999999999999 9999


Q ss_pred             ccccccccccCCcc
Q 002280          534 SFSGSILKIKRPKE  547 (943)
Q Consensus       534 ~l~Gr~LkV~rp~d  547 (943)
                      .|.|++|+|.....
T Consensus        87 ~~~gr~l~V~~a~~  100 (111)
T 2cpi_A           87 VVDGRTLKASLGTT  100 (111)
T ss_dssp             EETTEEEEEESCCC
T ss_pred             EECCEEEEEEeccc
Confidence            99999999986543

>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=99.17  E-value=2e-11  Score=109.15  Aligned_cols=73  Identities=26%  Similarity=0.406  Sum_probs=62.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +..++|||+|||+.+|+++|+++|.+| .+..            +.+..++|||||+|.+.++|..|+. |||..+.|++
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------------CYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKD   69 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSS-CCCC------------EEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CeEE------------EEEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcE
Confidence            456899999999999999999999876 3222            2223789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|..+.
T Consensus        70 l~V~~a~   76 (88)
T 1wg1_A           70 LIVQLQP   76 (88)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9998654

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.17  E-value=5.9e-11  Score=112.93  Aligned_cols=79  Identities=23%  Similarity=0.233  Sum_probs=66.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|..||.+..+      ..+.+. ++.++|||||+|.+.++|..|+. |||..|.|+.
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 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKA------AVDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGRP  105 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEE------EEECCS-SSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEE------EEEECC-CCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            456899999999999999999999999864332      122222 67789999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
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

>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=99.17  E-value=4.4e-11  Score=112.57  Aligned_cols=71  Identities=20%  Similarity=0.238  Sum_probs=60.2

Q ss_pred             CCCCeEEE--cCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc--
Q 002280          461 RPMRRLCV--ENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF--  535 (943)
Q Consensus       461 ~~~rtLfV--gNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l--  535 (943)
                      .+.++|||  ||||+.+|+++|+++|++||.            |.++.+..++|||||+|.+.++|..|+. |||..|  
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            45789999  889999999999999999994            3444455579999999999999999999 999887  


Q ss_pred             ---cccccccc
Q 002280          536 ---SGSILKIK  543 (943)
Q Consensus       536 ---~Gr~LkV~  543 (943)
                         .|++|.|.
T Consensus        91 ~lg~g~~l~v~  101 (114)
T 2cq2_A           91 DLGQKITLYLN  101 (114)
T ss_dssp             TTSCEEECEEE
T ss_pred             ccCCCcEEEEE
Confidence               56777664

>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=99.17  E-value=2.8e-11  Score=113.95  Aligned_cols=70  Identities=26%  Similarity=0.284  Sum_probs=58.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +...+|||+|||+.+|+++|+++|.+||.            |..+.+... |||||+|.+.++|..||. |||..|.|+.
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            34679999999999999999999999883            444544443 999999999999999999 9999999999


Q ss_pred             cccc
Q 002280          540 LKIK  543 (943)
Q Consensus       540 LkV~  543 (943)
                      |+|.
T Consensus        81 ~~~~   84 (115)
T 3beg_B           81 GETA   84 (115)
T ss_dssp             SCCC
T ss_pred             eeeE
Confidence            5554

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.16  E-value=2.9e-11  Score=117.37  Aligned_cols=121  Identities=12%  Similarity=0.113  Sum_probs=72.2

Q ss_pred             EEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCCcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCC
Q 002280          592 CAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGSIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSS  671 (943)
Q Consensus       592 ~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~  671 (943)
                      +.|++|.+...+..|+..|+|-...|+.- +.                . +.+    +....+++.|+|.||....+   
T Consensus         6 ~~~~~~~~~~~~~~a~~~~~g~~~~g~~~-~~----------------~-~~~----~~~~~~~~~l~V~nLp~~~t---   60 (135)
T 2lea_A            6 HHHHHSSGLVPRGSHMASMTGGQQMGRGS-MS----------------Y-GRP----PPDVEGMTSLKVDNLTYRTS---   60 (135)
T ss_dssp             ------------------------------CC----------------S-CCS----CSSGGGCCCEEEECCCSSCH---
T ss_pred             cccccccCCCchhhhhhhccCCCCCCCCC-CC----------------c-CCC----CCCCCCCCEEEEeCCCCCCC---
Confidence            56778888888888988888765544321 00                0 000    11124577899999964322   


Q ss_pred             CChHHHHHHHHHHHHHhcCCCCeEEEEEecCC-CCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEeccc
Q 002280          672 LSELEVEEVLEDVRLECARFGSVKSVNVVKYG-DSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDH  746 (943)
Q Consensus       672 i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~-~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~  746 (943)
                               .++|+++|++||.|+.|.|+.+. .+..+|||||+|.+.++|.+|+..|||..|.++.+.|..+...
T Consensus        61 ---------e~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~  127 (135)
T 2lea_A           61 ---------PDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYG  127 (135)
T ss_dssp             ---------HHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCC
T ss_pred             ---------HHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence                     37899999999999999999874 6788999999999999999999999999999999999887653

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.16  E-value=1.6e-11  Score=114.84  Aligned_cols=75  Identities=21%  Similarity=0.339  Sum_probs=61.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      ..+|||+|||+.+|+++|+++|++| .+.   .+.   .+.+. .++++|||||+|.+.++|.+||.+|+..|.|+.|.|
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-RVD---AVH---LLKDH-VGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEV   87 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCC---EEE---ECCCT-TCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-Cee---EEE---EEECC-CCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEE
Confidence            4689999999999999999999887 322   221   22333 388999999999999999999999999999999988


Q ss_pred             cCC
Q 002280          543 KRP  545 (943)
Q Consensus       543 ~rp  545 (943)
                      ...
T Consensus        88 ~~a   90 (109)
T 2dnn_A           88 SPA   90 (109)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            643

>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=99.15  E-value=1.1e-10  Score=120.22  Aligned_cols=107  Identities=13%  Similarity=0.069  Sum_probs=87.0

Q ss_pred             CHHHHHHHHH-c--cCCccccccccccCCcc-----c--------eeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEE
Q 002280          520 TAEDASAALC-C--DGCSFSGSILKIKRPKE-----F--------VEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFE  583 (943)
Q Consensus       520 s~edA~~Al~-L--nG~~l~Gr~LkV~rp~d-----~--------~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~  583 (943)
                      +.+.+..|+. .  ..+.+.+....|.+...     .        ...+|||+|||..+++++|.++|++||.|..|.|+
T Consensus        63 d~~~I~~Al~~S~~~~lev~ed~~~vrR~~~~p~p~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~  142 (193)
T 2voo_A           63 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMR  142 (193)
T ss_dssp             CHHHHHHHHHTCSSCCEEECTTSSEEEECTTSCCCCCCHHHHHHHHHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEE
T ss_pred             CHHHHHHHHhhcccceEEEecccceEEecccCCCcccchhhhhccccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEE
Confidence            6677888888 5  45667676666664321     1        11289999999999999999999999999999998


Q ss_pred             ec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          584 VN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       584 ~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      ++ .+.++|||||+|.+.++|.+|+..++ ..|.|+.|.|.++..
T Consensus       143 ~~~~~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          143 RTLHKAFKGSIFVVFDSIESAKKFVETPG-QKYKETDLLILFKDD  186 (193)
T ss_dssp             ECTTCCEEEEEEEEESSHHHHHHHHHCTT-CEETTEECEEEETTT
T ss_pred             ECCCCCcccEEEEEECCHHHHHHHHHhCC-CeECCEEEEEEEhHH
Confidence            87 35568999999999999999998665 589999999997644

>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=99.15  E-value=1e-10  Score=117.18  Aligned_cols=137  Identities=8%  Similarity=0.021  Sum_probs=73.3

Q ss_pred             EeecChhHHHHHHHHhCCCccC--CeEEEEEEcccCCCcCCCCCCCCCC---CCCCCcCCCCCCCceEEEeccCCCcCCC
Q 002280          595 IEYVDQLVTPKAIAGLNGLKVG--GQVLTAVQAVLDGSIMDNSGNPPFH---GIPKHALPLLKKPTEVLKLKNVFNPEGF  669 (943)
Q Consensus       595 VeF~~~e~A~kAl~~LnG~~~~--gr~L~V~~A~~~~~~~~~~~~~~~~---~ip~~~~~~~~~ps~vL~L~Nlv~~~~l  669 (943)
                      .+|.+.++|..|+..|++....  |+.+.+..+......    ...++.   .-.....+....++++|+|.||....+ 
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~~~----~~~~~~~s~~~~~~~~~~~~~~~~~l~V~nLp~~~t-   85 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIH----SYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQ-   85 (165)
T ss_dssp             -----------------------------------------------------------CCCCC-CEEEEEESCCTTCC-
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCcccccccc----CccccccCCCCCCCCCCCCCCCCCEEEEeCCCCCCC-
Confidence            6889999999999999987654  555555432111100    000000   000011122345688999999965333 


Q ss_pred             CCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecccc
Q 002280          670 SSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTDHK  747 (943)
Q Consensus       670 ~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~~~  747 (943)
                                 .++|+.+|++||.|..|.|+.+ ..|..+|||||+|.+.++|.+|+..|||..|+++.+.|.++....
T Consensus        86 -----------~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~  153 (165)
T 1rk8_A           86 -----------EDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKG  153 (165)
T ss_dssp             -----------HHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEECC
T ss_pred             -----------HHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCC
Confidence                       2689999999999999999987 578889999999999999999999999999999999998876543

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

Probab=98.75  E-value=4e-12  Score=119.63  Aligned_cols=87  Identities=20%  Similarity=0.197  Sum_probs=69.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcc--cccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQ--HVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~--~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ..+.++|||+|||+.+|+++|+++|++||.+....  ..+....+.+..++.++|||||+|.+.++|..||. |||..|.
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            35678999999999999999999999998643210  00001233444668899999999999999999999 9999999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|.++.
T Consensus        84 g~~l~V~~a~   93 (116)
T 2lcw_A           84 GNPIKVSFAT   93 (116)
Confidence            9999998654

>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=99.14  E-value=1.6e-11  Score=129.95  Aligned_cols=79  Identities=13%  Similarity=0.029  Sum_probs=66.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhh--hccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFL--LSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G--~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..++|||+|||+.+|+++|+++|..||  .+..+      .++.+..++.++|||||+|.+.++|.+||. |||..|.|+
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            567999999999999999999999998  43221      234455678899999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|...+
T Consensus       141 ~l~V~~a~  148 (229)
T 3q2s_C          141 NPVVTPVN  148 (229)
T ss_dssp             CCEEEECC
T ss_pred             EeEEEECC
Confidence            99987544

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.14  E-value=1.3e-10  Score=107.86  Aligned_cols=76  Identities=21%  Similarity=0.206  Sum_probs=67.8

Q ss_pred             EEEEecCCC-----CCCHHHHHHHHhhcCCeeEEEEEecC---CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISR-----TLSSKMVMEIVCAFGPLKAYHFEVNE---DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~-----~~teedL~e~Fs~fG~I~~v~l~~d~---~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|+|.||..     .-++++|+++|++||.|..|.|+.+.   +.++|+|||+|.+.++|.+|+..|||..|.|+.|.|.
T Consensus        10 ~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~   89 (105)
T 2pe8_A           10 VVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKAC   89 (105)
T ss_dssp             EEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             EEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEE
Confidence            899999963     23679999999999999999998874   3579999999999999999999999999999999999


Q ss_pred             Eccc
Q 002280          624 QAVL  627 (943)
Q Consensus       624 ~A~~  627 (943)
                      ++.+
T Consensus        90 ~a~~   93 (105)
T 2pe8_A           90 FYNL   93 (105)
T ss_dssp             ECCH
T ss_pred             EcCH
Confidence            9865

>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=99.14  E-value=1.3e-11  Score=120.39  Aligned_cols=79  Identities=27%  Similarity=0.326  Sum_probs=64.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ....++|||+|||+.+|+++|+++|++|| +..   +.   .+.+.. +.++|||||+|.+.++|..||.+|+..|.|+.
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~---v~---i~~d~~-g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~  114 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVR---VH---IEIGPD-GRVTGEADVEFATHEEAVAAMSKDRANMQHRY  114 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSE---EE---CCCSSS-SCSSCCCEEECSHHHHHHHHTTCCSCSSSSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeE---EE---EEECCC-CCCceEEEEEeCCHHHHHHHHhhCCCEECCEE
Confidence            35568999999999999999999999987 322   21   334433 88999999999999999999999999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|....
T Consensus       115 i~V~~a~  121 (139)
T 2hgn_A          115 IELFLNS  121 (139)
T ss_dssp             CCCEECC
T ss_pred             EEEEECC
Confidence            9987543

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.14  E-value=7.4e-11  Score=112.22  Aligned_cols=74  Identities=9%  Similarity=0.092  Sum_probs=65.7

Q ss_pred             EEEEecC----CCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecC----hhH----HHHHHH--HhCCCcc
Q 002280          552 AIFIGGI----SRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVD----QLV----TPKAIA--GLNGLKV  615 (943)
Q Consensus       552 ~LfV~NL----p~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~----~e~----A~kAl~--~LnG~~~  615 (943)
                      .|||+||    |+.+++++|+++|+.||.|..|.++.|  ++.++|||||+|.+    ++.    |.+|+.  .|||..|
T Consensus         4 kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I   83 (136)
T 2j8a_A            4 EIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFI   83 (136)
T ss_dssp             EEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEE
T ss_pred             EEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCee
Confidence            7999999    999999999999999999999999999  45679999999996    433    788888  7999999


Q ss_pred             CCeEEEEEEc
Q 002280          616 GGQVLTAVQA  625 (943)
Q Consensus       616 ~gr~L~V~~A  625 (943)
                      +|++|.|..-
T Consensus        84 ~Gr~irV~ln   93 (136)
T 2j8a_A           84 MGFKFEVILN   93 (136)
T ss_dssp             TTEEEEEEEC
T ss_pred             cCcEEEEEEC
Confidence            9999999843

>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=99.14  E-value=3.7e-11  Score=112.49  Aligned_cols=75  Identities=20%  Similarity=0.212  Sum_probs=60.2

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|..||.+..+      ..+.+. ++.++|||||+|.+.++|..||. |||..|.|+
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 EQDPTNLYISNLPLSMDEQELENMLKPFGQVIST------RILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTP   94 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEE------EEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEE------EEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEEcCC
Confidence            3456899999999999999999999998853332      122233 57789999999999999999999 999999655


Q ss_pred             ccc
Q 002280          539 ILK  541 (943)
Q Consensus       539 ~Lk  541 (943)
                      .+.
T Consensus        95 ~~~   97 (114)
T 1x5o_A           95 PGV   97 (114)
T ss_dssp             TTS
T ss_pred             ccc
Confidence            433

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.13  E-value=1.2e-10  Score=104.97  Aligned_cols=71  Identities=10%  Similarity=0.136  Sum_probs=63.6

Q ss_pred             EEEEecCCCCCCHHH----HHHHHhhc-CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKM----VMEIVCAF-GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teed----L~e~Fs~f-G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .|||+|||+.+++++    |+++|++| |.|..|.        .|+|||+|.+.++|.+|+..|||..|.|++|+|.+|.
T Consensus        11 ~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt--------gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~   82 (96)
T 2diu_A           11 LLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT--------GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTP   82 (96)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC--------TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe--------cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecC
Confidence            499999999999987    56899999 5998871        2999999999999999999999999999999999997


Q ss_pred             cCCC
Q 002280          627 LDGS  630 (943)
Q Consensus       627 ~~~~  630 (943)
                      ....
T Consensus        83 ~~sd   86 (96)
T 2diu_A           83 KNRE   86 (96)
T ss_dssp             CSCC
T ss_pred             CCcc
Confidence            6544

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.13  E-value=2.7e-10  Score=104.02  Aligned_cols=82  Identities=11%  Similarity=0.084  Sum_probs=72.2

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  731 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr  731 (943)
                      ..+.+.|+|.||....+.            ++|+++|++||.|+.|.|+.+..+..+|||||+|.+.++|.+|+..|||.
T Consensus        14 ~~~~~~l~v~nlp~~~t~------------~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~   81 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTK------------EELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGM   81 (100)
T ss_dssp             CCCCSCEEEESCCTTCCH------------HHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             CCCCCEEEEeCCCCCCCH------------HHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCC
Confidence            346788999999654332            68999999999999999999888889999999999999999999999999


Q ss_pred             ccCCCceEEEEecc
Q 002280          732 ETNEKGERLEEVTD  745 (943)
Q Consensus       732 ~~~~k~~~v~~~~~  745 (943)
                      .|+++.+.|..+..
T Consensus        82 ~~~g~~l~v~~a~~   95 (100)
T 2do4_A           82 TIKENIIKVAISNS   95 (100)
T ss_dssp             ESSSCEEEEEECCC
T ss_pred             EECCEEEEEEECCC
Confidence            99999999977654

>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=99.12  E-value=5.2e-11  Score=114.27  Aligned_cols=74  Identities=11%  Similarity=0.247  Sum_probs=66.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCee--EEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLK--AYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~--~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.| .|.  .|.|+.+. +.++|||||+|.+.++|.+||. +++..|+|+.|.|..+.+
T Consensus        44 ~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~a~~  120 (126)
T 2hgm_A           44 FVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFKSSQ  120 (126)
T ss_dssp             EEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEEECH
T ss_pred             EEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECCH
Confidence            89999999999999999999999 566  88888773 5679999999999999999998 578999999999988754

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.10  E-value=2.2e-10  Score=121.41  Aligned_cols=99  Identities=16%  Similarity=0.200  Sum_probs=79.3

Q ss_pred             HHHHccCCccccccccccCCc--------cceeEEEEEecCCCCC---------CHHHHHHHHhhcCCeeEEEEEecCCC
Q 002280          526 AALCCDGCSFSGSILKIKRPK--------EFVEVAIFIGGISRTL---------SSKMVMEIVCAFGPLKAYHFEVNEDH  588 (943)
Q Consensus       526 ~Al~LnG~~l~Gr~LkV~rp~--------d~~~~~LfV~NLp~~~---------teedL~e~Fs~fG~I~~v~l~~d~~~  588 (943)
                      .+|..+...+.|+........        +....+|||+||+..+         ++++|+++|++||.|..|.|+.    
T Consensus       102 ~~~~~~~~D~fGr~k~~~~~d~~~g~gs~~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~----  177 (240)
T 3u1l_A          102 LALRTEVLDCFGREKFADYREDMGGIGSFRKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE----  177 (240)
T ss_dssp             HHHHCSSBCTTSSBCGGGTC---------CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG----
T ss_pred             hcccccCcccccchhcccchhcccCcCccccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC----
Confidence            333334566667765544222        1223399999999998         7999999999999999999986    


Q ss_pred             CCCEEEEeecChhHHHHHHHHhCCCcc------------CCeEEEEEEcccC
Q 002280          589 EEPCAFIEYVDQLVTPKAIAGLNGLKV------------GGQVLTAVQAVLD  628 (943)
Q Consensus       589 skG~aFVeF~~~e~A~kAl~~LnG~~~------------~gr~L~V~~A~~~  628 (943)
                      ++|||||+|.+.++|..|+.+|+|..|            .|+.|.|.+|...
T Consensus       178 ~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          178 SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWANED  229 (240)
T ss_dssp             GGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC--
T ss_pred             CCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCCCEEEEEEccCC
Confidence            489999999999999999999999999            8999999999653

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.08  E-value=1.4e-11  Score=113.03  Aligned_cols=76  Identities=18%  Similarity=0.227  Sum_probs=63.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|+.||.+..+      ..+.+. ++.++|||||+|.+.++|..|+. +|..|.|+.|.
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 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEV------KIITDR-TGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLK   79 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEE------EEEECT-TSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEE------EEEECC-CCCccceEEEEECCHHHHHHHHh-CCCeECCEEEE
Confidence            45799999999999999999999999854332      122222 57789999999999999999999 99999999998


Q ss_pred             ccCC
Q 002280          542 IKRP  545 (943)
Q Consensus       542 V~rp  545 (943)
                      |.++
T Consensus        80 v~~a   83 (102)
T 2xs2_A           80 LGPA   83 (102)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            8753

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

Probab=99.08  E-value=9.4e-11  Score=119.07  Aligned_cols=79  Identities=23%  Similarity=0.237  Sum_probs=65.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+.      .+.+. ++.++|||||+|.+.++|..||. |||..|.|++
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            3467999999999999999999999998543321      11222 57889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus       159 l~V~~a~  165 (177)
T 2f3j_A          159 MDIQLVA  165 (177)
T ss_dssp             CEEEEES
T ss_pred             EEEEEec
Confidence            9997543

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

Probab=99.07  E-value=1e-10  Score=109.86  Aligned_cols=74  Identities=20%  Similarity=0.174  Sum_probs=57.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee---ecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~---~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ...++|||+|||+.+|+++|+++|++||.+. +.      .+.+..+   |.++|||||+|.+.++|..||. |++  +.
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            4578999999999999999999999998643 11      2223333   6889999999999999999998 732  55


Q ss_pred             ccccccc
Q 002280          537 GSILKIK  543 (943)
Q Consensus       537 Gr~LkV~  543 (943)
                      |+.|.+.
T Consensus        77 G~~~~~~   83 (114)
T 2dnl_A           77 GKLYLCV   83 (114)
T ss_dssp             TEEEEEE
T ss_pred             CcEEEec
Confidence            5555444

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

Probab=99.07  E-value=2.4e-10  Score=107.22  Aligned_cols=71  Identities=17%  Similarity=0.322  Sum_probs=60.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-----CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE-----DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~-----~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      .+|||+|||..+++++|+++|++||.|. +.++.+.     +.++|||||+|.+.++|.+|+..|+  .+.|+.|.+..
T Consensus         9 ~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~~~~~   84 (114)
T 2dnl_A            9 RKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--EEDGKLYLCVS   84 (114)
T ss_dssp             CCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--EETTEEEEEEC
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--hcCCcEEEecc
Confidence            3899999999999999999999999999 7776653     4679999999999999999999994  36667666653

>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=99.07  E-value=9.9e-11  Score=104.41  Aligned_cols=74  Identities=14%  Similarity=0.268  Sum_probs=62.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+   ++|||||+|.+.++|.+|+..  +..+.|+.|.|.++.+...
T Consensus         7 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~~~~~--~~~~~g~~l~v~~a~~~~~   80 (88)
T 1wf0_A            7 GVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCGE--DLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             EEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTTC--EEEETTEEEEEECCCCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC---CCCEEEEEECCHHHHHHHhcC--CceeCCEEEEEEecCCCCC
Confidence            8999999999999999999999999999998765   799999999999999754221  2345899999998876543

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

Probab=99.07  E-value=2.7e-10  Score=103.08  Aligned_cols=74  Identities=20%  Similarity=0.296  Sum_probs=61.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeee---eeecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC---VIQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~---~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      ...++|||+|||+.+|+++|+++|..||.            |..+   ......+.|||+|.+.++|..|+. |||..|.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~------------v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~   80 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGV------------VESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLE   80 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSC------------EEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCC------------eEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34689999999999999999999999984            3333   222334559999999999999999 9999999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|.|....
T Consensus        81 g~~l~V~~a~   90 (96)
T 2e44_A           81 NFTLKVAYIP   90 (96)
T ss_dssp             SCBCEEEECC
T ss_pred             CcEEEEEEcC
Confidence            9999998654

>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=99.05  E-value=2.8e-10  Score=113.62  Aligned_cols=73  Identities=23%  Similarity=0.237  Sum_probs=60.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc--ccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--SIL  540 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G--r~L  540 (943)
                      .+|||+|||+.+|+++|+++|++||.+..          +.+....++|||||+|.+.++|..|+. |||..|.|  ++|
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~----------V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L  116 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLK----------IITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTL  116 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEE----------EEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCE
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEE----------EEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEE
Confidence            57999999999999999999999995322          112224457899999999999999999 99999966  899


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|...+
T Consensus       117 ~V~~Ak  122 (164)
T 1sjr_A          117 RIDFSK  122 (164)
T ss_dssp             EEEECS
T ss_pred             EEEEec
Confidence            887544

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.05  E-value=3.2e-10  Score=108.36  Aligned_cols=70  Identities=24%  Similarity=0.229  Sum_probs=57.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCe-eeEEeCCHHHHHHHHH-ccCCcccc--ccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQ-AFVEFLTAEDASAALC-CDGCSFSG--SIL  540 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGy-AFVeF~s~edA~~Al~-LnG~~l~G--r~L  540 (943)
                      .|||+|||+.+|+++|.++|++||.+            .++.+....|| |||+|.+.++|..|+. |||..|.|  ++|
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 LLSIQNPLYPITVDVLYTVCNPVGKV------------QRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTL   94 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCE------------EEEEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEE
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCE------------EEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEE
Confidence            57899999999999999999999853            33322222486 9999999999999999 99999987  578


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|..++
T Consensus        95 ~V~~Ak  100 (124)
T 2e5i_A           95 KIEYAR  100 (124)
T ss_dssp             EEECCS
T ss_pred             EEEEec
Confidence            887544

>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=99.03  E-value=8.2e-11  Score=109.25  Aligned_cols=68  Identities=21%  Similarity=0.296  Sum_probs=52.2

Q ss_pred             ccccccccCCCCCCCCCCCCC--c--cCCceEEEEecCHHHHHHHHHHhhcCccCCceEEEEeechhhHHhh
Q 002280          873 GMQSSAVENGDNENQDPNQGH--I--FEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR  940 (943)
Q Consensus       873 ~~~e~~~~~~~~~~~~~d~~~--i--~~~g~v~v~f~~~~~a~~a~~~l~gr~f~~~~v~~~y~~~~~y~~~  940 (943)
                      +|++.+..-|.+....+-.+.  .  ...|++||+|.+.++|++|+++||||||+||+|+|.|++.+.|++.
T Consensus        31 dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~~~f~~~  102 (105)
T 3v4m_A           31 DVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR  102 (105)
T ss_dssp             HHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHTT
T ss_pred             HHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEeCHHHHhhc
Confidence            444444433655544443321  1  2469999999999999999999999999999999999999999864

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.03  E-value=3e-10  Score=109.33  Aligned_cols=71  Identities=21%  Similarity=0.276  Sum_probs=59.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-ecCCCe-eeEEeCCHHHHHHHHH-ccCCcccc--c
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQ-AFVEFLTAEDASAALC-CDGCSFSG--S  538 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-~~skGy-AFVeF~s~edA~~Al~-LnG~~l~G--r  538 (943)
                      -.|||+||++.+|+++|.++|++||.+            .++.+ ...+|| |||+|.+.++|..|+. |||..|.|  +
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V------------~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~   96 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTV------------LKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACC   96 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCE------------EEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEE
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCE------------EEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCc
Confidence            478899999999999999999999853            33222 245787 9999999999999999 99999988  8


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      .|+|..++
T Consensus        97 ~LrI~~ak  104 (130)
T 3zzy_A           97 TLRIDFSK  104 (130)
T ss_dssp             EEEEEECS
T ss_pred             EEEEEecC
Confidence            88887543

>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=99.00  E-value=1e-09  Score=102.73  Aligned_cols=75  Identities=17%  Similarity=0.244  Sum_probs=65.6

Q ss_pred             EEEEecCCCCCC-----------HHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISRTLS-----------SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~~~t-----------eedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|+|.||.....           +++|+++|++||.|..|.| .+. .++|||||+|.+.++|.+|+..|||..|.|++|
T Consensus        17 ~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~-~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l   94 (112)
T 2dit_A           17 VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDR-HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI   94 (112)
T ss_dssp             EEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETT-CTTCEEEEECSCHHHHHHHHHHSTTCEETTEEC
T ss_pred             EEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecC-CCCEEEEEEECCHHHHHHHHHHcCCCEECCcEE
Confidence            899999954432           5899999999999999965 443 379999999999999999999999999999999


Q ss_pred             EEEEcccC
Q 002280          621 TAVQAVLD  628 (943)
Q Consensus       621 ~V~~A~~~  628 (943)
                      .|.++.+.
T Consensus        95 ~v~~a~~~  102 (112)
T 2dit_A           95 TAQAWDGT  102 (112)
T ss_dssp             EEEECCSC
T ss_pred             EEEEeCCC
Confidence            99998664

>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=99.00  E-value=2.4e-10  Score=101.90  Aligned_cols=73  Identities=18%  Similarity=0.169  Sum_probs=56.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-ecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+            ..+.+ ..++|||||+|.+.++|+.|+.. .+.+.|+.
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i------------~~v~i~~~~~g~afV~f~~~~~a~~~~~~-~~~~~g~~   69 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDV------------MDVFIPKPFRAFAFVTFADDQIAQSLCGE-DLIIKGIS   69 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCC------------CEEECCSSCCSCCEEECSCHHHHHHTTTC-EEEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCe------------eEEEEecCCCCEEEEEECCHHHHHHHhcC-CceeCCEE
Confidence            456899999999999999999999998853            33332 23799999999999999764332 34568888


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|.++.
T Consensus        70 l~v~~a~   76 (88)
T 1wf0_A           70 VHISNAE   76 (88)
T ss_dssp             EEEECCC
T ss_pred             EEEEecC
Confidence            8887543

>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=98.99  E-value=2.4e-10  Score=117.69  Aligned_cols=81  Identities=19%  Similarity=0.224  Sum_probs=65.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|++||.+..+       .+.....+.++|||||+|.+.++|..|+.+.+..|.|++|.
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 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNI-------QMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL  180 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEE-------EEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECE
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEE-------EEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEE
Confidence            35899999999999999999999999853332       11111236789999999999999999999656799999999


Q ss_pred             ccCCccce
Q 002280          542 IKRPKEFV  549 (943)
Q Consensus       542 V~rp~d~~  549 (943)
                      |.+..+|.
T Consensus       181 V~~~~~y~  188 (193)
T 2voo_A          181 ILFKDDYF  188 (193)
T ss_dssp             EEETTTC-
T ss_pred             EEEhHHHH
Confidence            99887764

>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=98.99  E-value=6.1e-10  Score=100.01  Aligned_cols=72  Identities=17%  Similarity=0.210  Sum_probs=54.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee-cCCCeeeEEeCCHHHHHHHHHccCC--ccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALCCDGC--SFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~-~skGyAFVeF~s~edA~~Al~LnG~--~l~  536 (943)
                      ..+..+|||+|||+.+|+++|+++|++||.            |.++.+. .++|||||+|.+.++|..   ++|.  .+.
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~------------i~~v~i~~~srGfaFV~F~~~~~A~~---~~~~~~~~~   72 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGE------------VVDVFIPKPFRAFAFVTFADDKVAQS---LCGEDLIIK   72 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSC------------EEEEECCSSCCSEEEEEESCHHHHHH---HTTCEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCC------------EEEEEEeeCCCCEEEEEECCHHHHHH---HcCCCcccC
Confidence            355789999999999999999999999984            3333332 379999999999999984   4554  445


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |+.|.|.++.
T Consensus        73 g~~v~v~~a~   82 (89)
T 3d2w_A           73 GISVHISNAE   82 (89)
T ss_dssp             TEEEEEEECC
T ss_pred             CEEEEEEEcC
Confidence            8888877543

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.99  E-value=4.2e-10  Score=119.32  Aligned_cols=76  Identities=17%  Similarity=0.121  Sum_probs=67.2

Q ss_pred             CCCCCeEEEcCCCCCC---------CHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-
Q 002280          460 NRPMRRLCVENLPLSA---------SEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-  529 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~v---------TEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-  529 (943)
                      ....++|||||||..+         |+++|+++|++||            .|.++.+..++|||||+|.+.++|+.|+. 
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG------------~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~a  198 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLG------------DIDRIRYVESKNCGFVKFKYQANAEFAKEA  198 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTS------------CEEEEEEEGGGTEEEEEESSHHHHHHHHHH
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccC------------CEEEEEEECCCCEEEEEeCCHHHHHHHHHH
Confidence            4568999999999998         7999999999998            55666666789999999999999999999 


Q ss_pred             ccCCcc------------ccccccccCCcc
Q 002280          530 CDGCSF------------SGSILKIKRPKE  547 (943)
Q Consensus       530 LnG~~l------------~Gr~LkV~rp~d  547 (943)
                      |+|..|            .|+.|.|.++++
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            999988            899999997764

>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=98.97  E-value=1.3e-09  Score=114.04  Aligned_cols=84  Identities=19%  Similarity=0.244  Sum_probs=72.5

Q ss_pred             CCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCC-----CCcceeEEEEeCCHHHHHHHHHH
Q 002280          653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD-----SNISTIQACEGNENTASAGVGQN  727 (943)
Q Consensus       653 ~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~-----g~~~G~~FVeF~~~e~A~~Ai~~  727 (943)
                      .++.++.|.|+++++++.   +    ++.+||+++|++||.|.+|.|+++..     +...|++||+|.+.++|.+|+.+
T Consensus       122 ~~s~v~~l~n~v~~~e~~---~----e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~  194 (222)
T 3dxb_A          122 MESTVMVLRNMVDPKDID---D----DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQA  194 (222)
T ss_dssp             CBCSEEEEESSCCGGGCC---T----THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHH
T ss_pred             cccccchhhcCCCHHHHH---H----HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHH
Confidence            346789999999988873   2    34578999999999999999987643     36889999999999999999999


Q ss_pred             hCCCccCCCceEEEEe
Q 002280          728 LTNDETNEKGERLEEV  743 (943)
Q Consensus       728 LnGr~~~~k~~~v~~~  743 (943)
                      |||++|+++.+.+...
T Consensus       195 l~gr~~~gr~i~~~~~  210 (222)
T 3dxb_A          195 LNGRWFAGRKVVAEVY  210 (222)
T ss_dssp             HTTCBSSSSBCEEEEC
T ss_pred             hcCceECCeEEEEEEc
Confidence            9999999999998664

>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=98.94  E-value=4e-10  Score=104.43  Aligned_cols=71  Identities=20%  Similarity=0.235  Sum_probs=60.5

Q ss_pred             EecCCCCCCHHHHHHHH------------hhcCCeeEEEEEecC-CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          555 IGGISRTLSSKMVMEIV------------CAFGPLKAYHFEVNE-DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       555 V~NLp~~~teedL~e~F------------s~fG~I~~v~l~~d~-~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      +.|||..+++++|++.|            ++||.|..|.|+++. +.++|||||+|.+.++|.+|+..|||..|.|++|.
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            45666667776665555            999999999998874 45799999999999999999999999999999999


Q ss_pred             EEEc
Q 002280          622 AVQA  625 (943)
Q Consensus       622 V~~A  625 (943)
                      |.++
T Consensus       100 v~~s  103 (104)
T 1jmt_A          100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9875

>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=98.90  E-value=1.9e-09  Score=102.20  Aligned_cols=76  Identities=20%  Similarity=0.169  Sum_probs=65.8

Q ss_pred             EEEEecCCC--CC---CHHHHHHHHhhcCCeeEEEEEecCC------CCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGISR--TL---SSKMVMEIVCAFGPLKAYHFEVNED------HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NLp~--~~---teedL~e~Fs~fG~I~~v~l~~d~~------~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|+|.|+-.  .+   .+++|+++|++||.|..|.|+.+..      .++|+|||+|.+.++|.+|+..|||..|+|+.|
T Consensus        22 vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i  101 (118)
T 3ue2_A           22 VMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKV  101 (118)
T ss_dssp             EEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             EEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCcEE
Confidence            899999843  22   3589999999999999999988732      346999999999999999999999999999999


Q ss_pred             EEEEccc
Q 002280          621 TAVQAVL  627 (943)
Q Consensus       621 ~V~~A~~  627 (943)
                      .|.++..
T Consensus       102 ~v~~~~~  108 (118)
T 3ue2_A          102 VAEVYDQ  108 (118)
T ss_dssp             EEEEECH
T ss_pred             EEEEcCh
Confidence            9998744

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.90  E-value=4e-10  Score=107.23  Aligned_cols=74  Identities=11%  Similarity=0.118  Sum_probs=62.2

Q ss_pred             CeEEEcCC----CCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCC----HHH----HHHHHH--
Q 002280          464 RRLCVENL----PLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT----AED----ASAALC--  529 (943)
Q Consensus       464 rtLfVgNL----P~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s----~ed----A~~Al~--  529 (943)
                      ..|||+||    |+.+|+.+|+++|++||.+..+      ..+.+..||.++|||||+|.+    +++    |..|+.  
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 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHF------EAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKH   76 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEE------EEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEE------EEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHh
Confidence            58999999    9999999999999999964433      366778899999999999996    433    777866  


Q ss_pred             -ccCCcccccccccc
Q 002280          530 -CDGCSFSGSILKIK  543 (943)
Q Consensus       530 -LnG~~l~Gr~LkV~  543 (943)
                       |||..|.|++|+|.
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             79999999999986

>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=98.76  E-value=1.3e-08  Score=113.32  Aligned_cols=64  Identities=22%  Similarity=0.279  Sum_probs=55.4

Q ss_pred             CCCCCeEEEcC--CCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          460 NRPMRRLCVEN--LPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgN--LP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      +.++++|||||  |++.+||++|+++|++||.            |..+.+..++|||||+|.+.++|.+|++ |||..+
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~------------V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~   81 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGL------------VDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEV   81 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSC------------EEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCC------------eEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCcc
Confidence            45678999999  5789999999999999984            3445555579999999999999999999 999877

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.73  E-value=2.5e-08  Score=91.71  Aligned_cols=65  Identities=11%  Similarity=0.121  Sum_probs=57.5

Q ss_pred             CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          560 RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       560 ~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      ..+++++|+++|++||.|..|.|+.   .++|||||+|.+.++|..|+..++|  +.|++|.|.++.+..
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~---~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~~~   91 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS---KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEGQP   91 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES---SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSCCC
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc---CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccCCC
Confidence            5689999999999999999999873   5799999999999999999998665  579999999986644

>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=98.70  E-value=1.8e-08  Score=112.29  Aligned_cols=70  Identities=20%  Similarity=0.313  Sum_probs=61.4

Q ss_pred             EEEEec--CCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc---CCe--EEEEEE
Q 002280          552 AIFIGG--ISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV---GGQ--VLTAVQ  624 (943)
Q Consensus       552 ~LfV~N--Lp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~---~gr--~L~V~~  624 (943)
                      +|||+|  |+..+++++|+++|++||.|..|.+..    ++|||||+|.+.++|.+|+..|||..+   .|+  +|.|.+
T Consensus        20 ~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~----~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~   95 (345)
T 3tht_A           20 SLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNF   95 (345)
T ss_dssp             EEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT----TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEE
T ss_pred             EEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEE
Confidence            899999  578999999999999999999887643    689999999999999999999999887   345  566666


Q ss_pred             c
Q 002280          625 A  625 (943)
Q Consensus       625 A  625 (943)
                      +
T Consensus        96 ~   96 (345)
T 3tht_A           96 V   96 (345)
T ss_dssp             C
T ss_pred             e
Confidence            5

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.51  E-value=1.9e-07  Score=85.74  Aligned_cols=58  Identities=10%  Similarity=0.014  Sum_probs=50.8

Q ss_pred             HHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEecc
Q 002280          682 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVTD  745 (943)
Q Consensus       682 eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~~  745 (943)
                      ++|+++|++||.|+.|.|+.    ..+|||||+|.+.++|..|+..++|  +.++.+.|.+...
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            68999999999999999983    5789999999999999999999766  5788888877654

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.38  E-value=7.6e-07  Score=79.61  Aligned_cols=70  Identities=11%  Similarity=0.243  Sum_probs=58.9

Q ss_pred             EEEEecCCC----CCCH----HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISR----TLSS----KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~----~~te----edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|+|.-.+.    .+-.    .+|.+.|++||.|..++++.+      .+||+|.+.++|.+|+. |||..++|+.|+|.
T Consensus         9 tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d------~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~   81 (91)
T 2dnr_A            9 TVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVED------KMWVTFLEGSSALNVLS-LNGKELLNRTITIA   81 (91)
T ss_dssp             EEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSS------SEEEEESSHHHHHHGGG-GTTCEETTEEEEEE
T ss_pred             eEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecC------CEEEEECChHHHHHHHh-cCCeEeCCeEEEEE
Confidence            677776652    2323    578999999999999999775      48999999999999998 99999999999999


Q ss_pred             EcccC
Q 002280          624 QAVLD  628 (943)
Q Consensus       624 ~A~~~  628 (943)
                      .+.|.
T Consensus        82 lkt~d   86 (91)
T 2dnr_A           82 LKSPS   86 (91)
T ss_dssp             ECCCS
T ss_pred             eCCCC
Confidence            88663

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.32  E-value=9.1e-07  Score=79.09  Aligned_cols=59  Identities=15%  Similarity=0.162  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          678 EEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       678 ~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      .++..+|.+.|.+||+|..|+|+.+.       +||+|.+.++|.+|+. |||..++++.++|....
T Consensus        26 ~~l~~~L~~~F~~~G~Vi~vr~~~d~-------~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt   84 (91)
T 2dnr_A           26 DALIDELLQQFASFGEVILIRFVEDK-------MWVTFLEGSSALNVLS-LNGKELLNRTITIALKS   84 (91)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEECSSS-------EEEEESSHHHHHHGGG-GTTCEETTEEEEEEECC
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEecCC-------EEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCC
Confidence            34567889999999999999999854       7999999999999998 99999999999998765

>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=98.29  E-value=1.1e-06  Score=91.65  Aligned_cols=104  Identities=18%  Similarity=0.099  Sum_probs=74.6

Q ss_pred             eEEeCCHHHHHHHHH--ccCCccccccccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC------
Q 002280          515 FVEFLTAEDASAALC--CDGCSFSGSILKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE------  586 (943)
Q Consensus       515 FVeF~s~edA~~Al~--LnG~~l~Gr~LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~------  586 (943)
                      ++-+.+.++...+|.  +.+.......+.+...        +.......-.+++|.+.|++||.|..+.|+.+.      
T Consensus       100 ~~G~~~~~~l~~~l~~~l~~~~~~s~v~~l~n~--------v~~~e~~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~  171 (222)
T 3dxb_A          100 KVGALSKGQLKEFLDANLAGSAMESTVMVLRNM--------VDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEED  171 (222)
T ss_dssp             EESCCCHHHHHHHHHHHSCCSCCBCSEEEEESS--------CCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEECCSSTT
T ss_pred             eccccChHHHHHHHHhhccccccccccchhhcC--------CCHHHHHHHHHHHHHHHHHccCCeEEEEEecCCCCcccC
Confidence            444567777777777  4443332222222110        011112234568899999999999999998652      


Q ss_pred             CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          587 DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       587 ~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +.++|++||+|.+.++|.+|+..|||+.|+|++|.|.++.
T Consensus       172 ~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          172 AEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             CCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             cCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            2568999999999999999999999999999999999864

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

Probab=98.26  E-value=1.5e-06  Score=82.32  Aligned_cols=68  Identities=12%  Similarity=0.070  Sum_probs=59.7

Q ss_pred             EEEEecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecC-hhHHHHHHHHhC--CCccCCeEEEEE
Q 002280          552 AIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVD-QLVTPKAIAGLN--GLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~-~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~-~e~A~kAl~~Ln--G~~~~gr~L~V~  623 (943)
                      .|+|+||+.. ++.++|+++|++||.|..|.+..+    ...|||.|.+ ..+|..|+..||  |..|.|..+++.
T Consensus        20 il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g----~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~e   91 (121)
T 1owx_A           20 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   91 (121)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             EEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecC----CCEEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEE
Confidence            8999999999 999999999999999999998775    3369999999 799999999995  677777766664

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

Probab=98.11  E-value=4e-06  Score=79.43  Aligned_cols=71  Identities=10%  Similarity=-0.024  Sum_probs=59.3

Q ss_pred             CCCCeEEEcCCCCC-CCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCC-HHHHHHHHH-cc--CCcc
Q 002280          461 RPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLT-AEDASAALC-CD--GCSF  535 (943)
Q Consensus       461 ~~~rtLfVgNLP~~-vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s-~edA~~Al~-Ln--G~~l  535 (943)
                      .....|||+||+.. +|+++|+++|++||            .|..|.+......|||.|.+ ..+|..|+. ||  +..|
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 99999999998887            55666666666789999999 899999998 84  6888


Q ss_pred             cccccccc
Q 002280          536 SGSILKIK  543 (943)
Q Consensus       536 ~Gr~LkV~  543 (943)
                      .|..+++.
T Consensus        84 ~g~~~~~e   91 (121)
T 1owx_A           84 RNKEVTWE   91 (121)
T ss_dssp             TSSSEEEE
T ss_pred             eCcEEEEE
Confidence            88776654

>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=98.09  E-value=3.7e-06  Score=75.57  Aligned_cols=67  Identities=13%  Similarity=0.272  Sum_probs=57.2

Q ss_pred             EEEEecCCCC-----CCH----HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          552 AIFIGGISRT-----LSS----KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       552 ~LfV~NLp~~-----~te----edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      +|+|.-++..     +-.    .+|.+.|+.||.|..++++.+      .+||+|.+.++|.+||. |||..++|+.|+|
T Consensus        17 Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d------~~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V   89 (95)
T 1ufw_A           17 TVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG------QMLVTFADSHSALSVLD-VDGMKVKGRAVKI   89 (95)
T ss_dssp             EEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT------EEEEECSCSHHHHHHHH-GGGSEETTEEEEE
T ss_pred             eEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecC------cEEEEEcChHHHHHHHh-cCCeeeCCeEEEE
Confidence            8888877632     222    468899999999999999876      39999999999999998 9999999999999


Q ss_pred             EEc
Q 002280          623 VQA  625 (943)
Q Consensus       623 ~~A  625 (943)
                      ...
T Consensus        90 ~~k   92 (95)
T 1ufw_A           90 SGP   92 (95)
T ss_dssp             ECC
T ss_pred             ecc
Confidence            854

>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=98.06  E-value=1.4e-06  Score=78.33  Aligned_cols=58  Identities=7%  Similarity=0.122  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEe
Q 002280          678 EEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEV  743 (943)
Q Consensus       678 ~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~  743 (943)
                      .++..+|.+.|..||+|..|+|..+.       +||+|.+.++|.+|+. |||.+++++.++|...
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            45567899999999999999999864       7999999999999998 9999999999999764

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.80  E-value=6.2e-05  Score=69.00  Aligned_cols=70  Identities=17%  Similarity=0.203  Sum_probs=65.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhc-----CCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAF-----GPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~f-----G~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      .+|-+-|||..++...|+.+++.|     |.|..|.|..|    -+-|+|+|.+...|-+|.-+|+|..|.|++|.|..
T Consensus        22 rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pD----H~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gT   96 (117)
T 2l9w_A           22 TLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSD----FNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGT   96 (117)
T ss_dssp             SCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETT----TTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             cEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecC----CCceEEEEccchhhHHHHhhcCCeeecCeEEEecC
Confidence            378899999999999999999999     99999998876    56799999999999999999999999999999974

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.35  E-value=0.0007  Score=61.61  Aligned_cols=93  Identities=17%  Similarity=0.205  Sum_probs=74.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ...+|.|.|||+.+.++.|.-+|+.--. .|.      .+|.++..-.  +-|+|+|.+.+.|++.|+-....|.|.+|.
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rr-sGG------G~V~~v~~~~--~~AvItF~d~~va~rVL~k~~H~L~~~~Ls   77 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRR-SGG------GPVLSWQRLG--CGGVLTFREPADAERVLAQADHELHGAQLS   77 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTT-TCC------CCEEEEEEET--TEEEEEESSHHHHHHHHTCSCCBSSSSBCE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCc-CCC------ceeeEEEEcC--CcEEEEEcChHHHHHHhcCCcceecCeEEE
Confidence            4579999999999999999999976211 121      2666666544  789999999999999999878899999999


Q ss_pred             ccCCccceeEEEEEecCCCCCC
Q 002280          542 IKRPKEFVEVAIFIGGISRTLS  563 (943)
Q Consensus       542 V~rp~d~~~~~LfV~NLp~~~t  563 (943)
                      |.......+.+|++.+|++.++
T Consensus        78 V~P~~~~~~~r~ll~gl~~~t~   99 (104)
T 2dhx_A           78 LRPAPPRAPARLLLQGLPPGTS   99 (104)
T ss_dssp             EEECCCCCCCCCCCCSCCCCCC
T ss_pred             EEcCCCCCcceEeeecCCCCCC
Confidence            9865555556999999998775

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.31  E-value=0.00055  Score=62.85  Aligned_cols=76  Identities=16%  Similarity=0.218  Sum_probs=63.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|-+-|||-.++...|+.|++++..+.      . ..++.+..-.+-+-|+|+|.+...|-+|.- |+|..|.|++|
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 LETLICLFPLSDKVSPSLICQFLQEEIHIN------E-KDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVI   92 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCC------T-TTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccC------c-cceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEE
Confidence            378999999999999999999999984211      1 155666667778889999999999999875 99999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      ++..
T Consensus        93 r~gT   96 (117)
T 2l9w_A           93 RSGT   96 (117)
T ss_dssp             EEEC
T ss_pred             EecC
Confidence            8863

>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=96.17  E-value=0.025  Score=51.67  Aligned_cols=74  Identities=9%  Similarity=0.063  Sum_probs=62.6

Q ss_pred             eEEEEEecCCCCC-CH----HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          550 EVAIFIGGISRTL-SS----KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       550 ~~~LfV~NLp~~~-te----edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      +.+|+|.||+..+ ..    +.++++|..|+++....+.+    +-.-+.|.|.++++|.+|-..|++..|.|..|+|.+
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lk----SFRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YF   80 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYF   80 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEEC
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecC----cceEEEEEeCChHHHHHHHHHhccceecCceeEEEe
Confidence            3489999998744 22    56799999999998887766    445678999999999999999999999999999998


Q ss_pred             ccc
Q 002280          625 AVL  627 (943)
Q Consensus       625 A~~  627 (943)
                      +.+
T Consensus        81 gq~   83 (104)
T 1wey_A           81 AQT   83 (104)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            864

>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=95.25  E-value=0.033  Score=50.16  Aligned_cols=53  Identities=11%  Similarity=0.246  Sum_probs=45.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      .++| ++|..+...||.++|+.||.| .|.++.|     ..|||.|.+++.|..|+..+.
T Consensus        18 Vf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidD-----TsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           18 VLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-----TSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             EEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEET-----TEEEEECSCHHHHHHHHHHHH
T ss_pred             EEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcC-----CeEEEEecCHHHHHHHHHhcc
Confidence            5566 999999999999999999965 4666655     589999999999999998763

>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=95.25  E-value=0.024  Score=51.81  Aligned_cols=70  Identities=13%  Similarity=0.038  Sum_probs=53.5

Q ss_pred             CCCeEEEcCCCCCC-CH----HHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          462 PMRRLCVENLPLSA-SE----KALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       462 ~~rtLfVgNLP~~v-TE----edL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      -+.+|+|.||+..+ +.    +.+.++|..|.            ++.....-+|-.-..|.|.++++|.+|-. |++..|
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~------------~~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh~~~f   71 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYD------------KDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEF   71 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC------------SSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEE
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhC------------cCcceeecCcceEEEEEeCChHHHHHHHHHhcccee
Confidence            35789999999865 43    45667776665            33444445566668899999999999998 999999


Q ss_pred             cccccccc
Q 002280          536 SGSILKIK  543 (943)
Q Consensus       536 ~Gr~LkV~  543 (943)
                      .|+.|+|-
T Consensus        72 ~g~~~r~Y   79 (104)
T 1wey_A           72 LGKEMKLY   79 (104)
T ss_dssp             TTEECEEE
T ss_pred             cCceeEEE
Confidence            99988654

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.75  E-value=0.13  Score=46.78  Aligned_cols=69  Identities=12%  Similarity=0.156  Sum_probs=56.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhh-----cCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCA-----FGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~-----fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|.|.|||..+.++.|.-+|+.     -|.|..+....      +-|+|+|.+...|++.|+. ..+.|.+..|.|....
T Consensus        10 ~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~------~~AvItF~d~~va~rVL~k-~~H~L~~~~LsV~P~~   82 (104)
T 2dhx_A           10 AVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG------CGGVLTFREPADAERVLAQ-ADHELHGAQLSLRPAP   82 (104)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET------TEEEEEESSHHHHHHHHTC-SCCBSSSSBCEEEECC
T ss_pred             EEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC------CcEEEEEcChHHHHHHhcC-CcceecCeEEEEEcCC
Confidence            8999999999999999999987     36888876532      6899999999999988863 3567888889997654


Q ss_pred             c
Q 002280          627 L  627 (943)
Q Consensus       627 ~  627 (943)
                      +
T Consensus        83 ~   83 (104)
T 2dhx_A           83 P   83 (104)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=94.46  E-value=0.14  Score=47.93  Aligned_cols=69  Identities=13%  Similarity=0.235  Sum_probs=56.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCC-eEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG-QVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g-r~L~V~~A~  626 (943)
                      .|.|-++|+.. -..|...|++||.|.....    ..+..+..|.|.+..+|.+||. .||..|+| ..|-|.+..
T Consensus        26 wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~----~~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIGV~p~~   95 (119)
T 1wwh_A           26 WVTVFGFPQAS-ASYILLQFAQYGNILKHVM----SNTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCI   95 (119)
T ss_dssp             EEEEECCCGGG-HHHHHHHHHTTSCEEEEEE----CSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECC
T ss_pred             EEEEECCCHHH-HHHHHHHHHhhCcEEEecc----CCCCCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEEEEECC
Confidence            67788888874 5678889999999988765    2356799999999999999997 79999975 677777653

>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=94.44  E-value=0.14  Score=45.83  Aligned_cols=65  Identities=17%  Similarity=0.168  Sum_probs=54.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC---C-CCCCEEEEeecChhHHHHHHHHhCCCccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---D-HEEPCAFIEYVDQLVTPKAIAGLNGLKVG  616 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~---~-~skG~aFVeF~~~e~A~kAl~~LnG~~~~  616 (943)
                      +|.|.+||+.+|++++.+.++.+..+.....+...   + ..-.-|||.|.+.+++..-...++|..|-
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~   71 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFL   71 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEE
Confidence            68999999999999999999999877766665442   1 22468999999999999999999998873

>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=94.11  E-value=0.082  Score=47.74  Aligned_cols=53  Identities=11%  Similarity=0.244  Sum_probs=45.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      .++| ++|..+...||.++|+.||.| .|.++.|     ..|||.|.+++.|..|+..+.
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fggv-~I~WidD-----TsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-----TSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSEEE-EEEEEET-----TEEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccCCE-EEEEEcC-----CeEEEEecCHHHHHHHHHhcc
Confidence            4555 999999999999999999954 5666665     589999999999999999774

>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=93.16  E-value=0.19  Score=47.09  Aligned_cols=63  Identities=16%  Similarity=0.182  Sum_probs=50.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGS  538 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr  538 (943)
                      ..-|.|-+.|+.. -..|...|++||.            |++........+-.|.|.+..+|.+||..||..|.|.
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G~------------Iv~~~~~~~~NWihI~Y~s~~~A~rAL~kNG~ii~g~   86 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYGN------------ILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGES   86 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSC------------EEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTT
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCc------------EEEeccCCCCCeEEEEeCCHHHHHHHHHhCCeEecCC
Confidence            4678999999985 6677888988884            3444444456789999999999999999999999753

>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=90.85  E-value=0.18  Score=45.02  Aligned_cols=65  Identities=18%  Similarity=0.270  Sum_probs=46.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec------CCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR------EKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~------skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      .+|.|.+||+.+||+++.+.+..+....          ...-.-|.      .-.-|||.|.+.+++..... ++|..|.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d----------~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~   71 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHD----------YFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFL   71 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEE----------EEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccce----------EEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEE
Confidence            4799999999999999999986643110          01111111      12349999999999999988 9998775


Q ss_pred             cc
Q 002280          537 GS  538 (943)
Q Consensus       537 Gr  538 (943)
                      +.
T Consensus        72 D~   73 (91)
T 1uw4_A           72 DN   73 (91)
T ss_dssp             CT
T ss_pred             cC
Confidence            43

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=90.27  E-value=0.41  Score=45.42  Aligned_cols=74  Identities=19%  Similarity=0.254  Sum_probs=54.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec--------------CC-CCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN--------------ED-HEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d--------------~~-~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      .|.|-+.|...+ ..|.+.|++||.|.. +.+...              +. .+..+..|+|.+..+|.+||. .||..|
T Consensus         9 ~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG~ii   86 (132)
T 3p3d_A            9 AILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENGAVF   86 (132)
T ss_dssp             EEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTTCEE
T ss_pred             EEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCCeEe
Confidence            466777866554 467788999999865 211110              00 146788999999999999997 899999


Q ss_pred             CCeEEEEEEccc
Q 002280          616 GGQVLTAVQAVL  627 (943)
Q Consensus       616 ~gr~L~V~~A~~  627 (943)
                      +|..|-|.+..+
T Consensus        87 ~G~mIGV~Py~~   98 (132)
T 3p3d_A           87 NGVLLGVIPYTK   98 (132)
T ss_dssp             TTEECEEEECCH
T ss_pred             CcEEEEEEECCH
Confidence            999888887644

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=89.71  E-value=0.18  Score=57.92  Aligned_cols=62  Identities=19%  Similarity=0.230  Sum_probs=42.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCC-eeeEEeCCHHHHHHHHHccCCccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKG-QAFVEFLTAEDASAALCCDGCSFS  536 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skG-yAFVeF~s~edA~~Al~LnG~~l~  536 (943)
                      ..|.|||. .|..+++.+|.++|++||.            |.++....++| ||.|||.+.+++..++...++...
T Consensus        52 a~rsv~v~-~~~~~~~~~l~~y~~~~g~------------i~~~~~~~~~g~~~~vef~~~~~~~~~~~~~~~p~~  114 (464)
T 3pq1_A           52 AQRTVLIH-CPEKISENKFLKYLSQFGP------------INNHFFYESFGLYAVVEFCQKESIGSLQNGTHTPXX  114 (464)
T ss_dssp             HHTEEEEE-ECCC---CHHHHHHGGGSC------------CCCEEEECSSSEEEEEECC---CCHHHHSSCCCCCC
T ss_pred             hcceEEEE-cCCCCCHHHHHHHHHhcCC------------cceEEEEccCCeEEEEEeCCHHHHHHHHhccCCCcc
Confidence            35899998 7999999999999999994            44455545555 899999999999988765444443

>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=89.16  E-value=0.9  Score=40.89  Aligned_cols=53  Identities=21%  Similarity=0.252  Sum_probs=41.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC  529 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~  529 (943)
                      ..+.++| ++|+.+.-.||.++|++||   |+       .|.  +++  -.-|||.|.+++.|..||.
T Consensus        15 r~HVf~l-~FP~ewKt~DI~~lFs~fg---gv-------~I~--Wid--DTsAlvvf~~~~~a~~al~   67 (100)
T 1whv_A           15 RDHVLHV-TFPKEWKTSDLYQLFSAFG---NI-------QIS--WID--DTSAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CCSEEEE-ECCTTCCHHHHHHHHTTTC---SC-------CCE--EEE--TTEEEEECSCHHHHHHHHH
T ss_pred             CCeEEEE-eCChhhhhHHHHHHhhccC---CE-------EEE--EEc--CCeEEEEecCHHHHHHHHH
Confidence            3456777 9999999999999999997   22       111  111  4569999999999999998

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=88.94  E-value=0.37  Score=43.42  Aligned_cols=72  Identities=17%  Similarity=0.195  Sum_probs=46.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeee-cCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~-~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .+-+|.|..||+.+||+++.+.+..+-..--+.-+++.     ...+ ..-.-|||.|.+.+++..... ++|..|.+.
T Consensus         8 ~~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~-----~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~   81 (97)
T 2l08_A            8 HSHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAAD-----LSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDS   81 (97)
T ss_dssp             CCCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCC-----SSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECT
T ss_pred             cceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCc-----cCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeC
Confidence            45689999999999999987776542110000001110     0001 112359999999999999998 999877543

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=86.70  E-value=0.42  Score=54.95  Aligned_cols=53  Identities=15%  Similarity=0.273  Sum_probs=40.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHH
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIA  608 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~  608 (943)
                      .|||. .|..+++.+|.++|++||+|..+.+..+   ..-||.|+|.+.+++..++.
T Consensus        55 sv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~---~g~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           55 TVLIH-CPEKISENKFLKYLSQFGPINNHFFYES---FGLYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             EEEEE-ECCC---CHHHHHHGGGSCCCCEEEECS---SSEEEEEECC---CCHHHHS
T ss_pred             eEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEcc---CCeEEEEEeCCHHHHHHHHh
Confidence            89997 7999999999999999999999988765   23599999999999886654

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=85.35  E-value=0.53  Score=42.45  Aligned_cols=64  Identities=13%  Similarity=0.134  Sum_probs=46.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC---C-CCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE---D-HEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~---~-~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      +|.|..||+.+|++++.+.++.+-.+.....+...   + ..-.-|||.|.+.++...-...++|..|
T Consensus        11 KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F   78 (97)
T 2l08_A           11 MVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIF   78 (97)
T ss_dssp             CEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEE
T ss_pred             eEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            78999999999999877776665443222221111   1 1235789999999999999999999887

>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=81.84  E-value=0.93  Score=40.94  Aligned_cols=53  Identities=21%  Similarity=0.291  Sum_probs=41.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-cc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD  531 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-Ln  531 (943)
                      +.++| ++|+.+.-.+|.++|++||   |+       .|  .+++  -.-|||.|.+++.|..||. +.
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fg---gv-------~I--~Wid--DTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFG---NI-------QI--SWID--DTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSE---EE-------EE--EEEE--TTEEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccC---CE-------EE--EEEc--CCeEEEEecCHHHHHHHHHhcc
Confidence            45666 9999999999999999997   22       11  1222  4569999999999999998 53

>1jmt_B Splicing factor U2AF 65 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens}

Probab=81.43  E-value=0.36  Score=33.29  Aligned_cols=17  Identities=24%  Similarity=0.391  Sum_probs=14.6

Q ss_pred             CCCCCCCCccccCCccc
Q 002280          391 AKWDVAPVETYSVPSNV  407 (943)
Q Consensus       391 ~~~di~P~~~~~v~~~~  407 (943)
                      ..||+||+||+.|+++.
T Consensus         6 ~~WDvpP~GyE~vtp~q   22 (28)
T 1jmt_B            6 KYWDVPPPGFEHITPMQ   22 (28)
T ss_dssp             CCBTCCCTTCTTSCHHH
T ss_pred             cccCCCCCCccccCHHH
Confidence            37999999999999843

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=80.19  E-value=1.7  Score=41.27  Aligned_cols=74  Identities=15%  Similarity=0.134  Sum_probs=48.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCccee----------eeeeecCCCeeeEEeCCHHHHHHHHHccCC
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCI----------GCVIQREKGQAFVEFLTAEDASAALCCDGC  533 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~----------~~~~~~skGyAFVeF~s~edA~~Al~LnG~  533 (943)
                      .-|.|-+.|+..+ ..|...|++||.++.  .+.......          ..-.....+...|.|.+..+|.+||..||.
T Consensus         8 ~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE--~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~   84 (132)
T 3p3d_A            8 LAILVFGYPETMA-NQVIAYFQEFGTILE--DFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGA   84 (132)
T ss_dssp             CEEEEECCCGGGH-HHHHHHHGGGSCBCS--CCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTC
T ss_pred             eEEEEEecCHHHH-HHHHHHHHhhceEee--eccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCe
Confidence            4677888876655 467788999987543  111000000          000001345678999999999999999999


Q ss_pred             ccccccc
Q 002280          534 SFSGSIL  540 (943)
Q Consensus       534 ~l~Gr~L  540 (943)
                      .|.|.-|
T Consensus        85 ii~G~mI   91 (132)
T 3p3d_A           85 VFNGVLL   91 (132)
T ss_dssp             EETTEEC
T ss_pred             EeCcEEE
Confidence            9998644

---

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	943
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	9e-11
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	4e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	4e-07
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
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-04
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-06
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	0.002
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	4e-06
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	7e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	7e-05
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	0.002
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	8e-06
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-05
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	4e-05
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	1e-05
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	1e-05
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-05
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-05
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	1e-04
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	3e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-05
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	3e-05
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-05
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	0.001
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
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
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	5e-05
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	9e-05
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	1e-04
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-04
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-04
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	2e-04
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	2e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	5e-04
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	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
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	5e-04
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	6e-04
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	6e-04
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	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
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	7e-04
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.001
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	0.002
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	0.002
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	0.002
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	0.002
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.004
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.004

>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 = 9e-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

>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 = 37.7 bits (87), Expect = 4e-04
 Identities = 14/71 (19%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGL 610
           +FIGG+S   + + + E    FG +K      +   +      F+ ++DQ    K +A  
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-Q 61

Query: 611 NGLKVGGQVLT 621
           +  ++  + + 
Sbjct: 62  SRHELDSKTID 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

>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 = 27/171 (15%), Positives = 57/171 (33%), Gaps = 19/171 (11%)

Query: 463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAE 522
           +R+L +  L    ++++L      +        +   +       +R +G  FV + T E
Sbjct: 6   LRKLFIGGLSFETTDESLRSHFEQW------GTLTDCVVMRDPNTKRSRGFGFVTYATVE 59

Query: 523 DASAALCCDGCSFSGSILKIKRPKEFVEV----------AIFIGGISRTLSSKMVMEIVC 572
           +  AA+        G +++ KR     +            IF+GGI        + +   
Sbjct: 60  EVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFE 119

Query: 573 AFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGLNGLKVGGQVLT 621
            +G ++      +    +    AF+ + D     K +       V G    
Sbjct: 120 QYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCE 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 = 45.8 bits (108), 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

>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: 888 DPNQGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR 940
             +   +   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: 653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGD 704
            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 = 38.4 bits (89), Expect = 4e-04
 Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 4/81 (4%)

Query: 545 PKEFVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHE---EPCAFIEYVDQL 601
           PK+     I +  I    + + + E+   FG LK                  F++++ + 
Sbjct: 3   PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQ 62

Query: 602 VTPKAIAGL-NGLKVGGQVLT 621
              KA   L +   + G+ L 
Sbjct: 63  DAKKAFNALCHSTHLYGRRLV 83

>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 = 44.3 bits (104), Expect = 2e-06
 Identities = 15/68 (22%), Positives = 36/68 (52%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           +++G +SR ++  +++++    GP K+          +P  F+E+ +      A+A +NG
Sbjct: 11  LYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNG 70

Query: 613 LKVGGQVL 620
            K+ G+ +
Sbjct: 71  RKILGKEV 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 = 35.8 bits (82), 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

>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

>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 = 43.0 bits (101), 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

>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 = 43.0 bits (101), Expect = 7e-06
 Identities = 13/67 (19%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++  + RT++   +  I   +G +   +   ++    P   AF+ Y  +    +AI+ L
Sbjct: 9   LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 68

Query: 611 NGLKVGG 617
           N +   G
Sbjct: 69  NNVIPEG 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 = 7e-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

>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 = 35.9 bits (82), Expect = 0.002
 Identities = 10/71 (14%), Positives = 28/71 (39%), Gaps = 3/71 (4%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGL 610
           IF+GG+S   + + V      FG +       ++         F+ +  + +  K    +
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-I 60

Query: 611 NGLKVGGQVLT 621
           +  ++  +++ 
Sbjct: 61  HFHEINNKMVE 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 = 42.7 bits (100), 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

>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 = 42.3 bits (99), 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

>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 = 40.8 bits (95), Expect = 4e-05
 Identities = 30/71 (42%), Positives = 44/71 (61%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGL 610
           +FIGG+   L+   V E++ +FGPLKA++   +         AF EYVD  VT +AIAGL
Sbjct: 4   LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63

Query: 611 NGLKVGGQVLT 621
           NG+++G + L 
Sbjct: 64  NGMQLGDKKLL 74

>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 = 42.3 bits (99), Expect = 1e-05
 Identities = 15/67 (22%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++ G+ +T++ K + ++   +G +      V++         FI +  ++   +AI GL
Sbjct: 9   LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 68

Query: 611 NGLKVGG 617
           NG K  G
Sbjct: 69  NGQKPSG 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 = 42.2 bits (99), Expect = 1e-05
 Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLK-AYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN 611
           + +  +   +S   + E+   FG LK A             A + +  +    KA+   N
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 62

Query: 612 GLKVGGQVL 620
           G+ + G+ +
Sbjct: 63  GVPLDGRPM 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

>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

>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 = 2e-05
 Identities = 12/68 (17%), Positives = 29/68 (42%), Gaps = 1/68 (1%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           ++I  +   ++++ + +I   +GP++        +     A++ Y D      A   L+G
Sbjct: 10  LYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETR-GTAYVVYEDIFDAKNACDHLSG 68

Query: 613 LKVGGQVL 620
             V  + L
Sbjct: 69  FNVCNRYL 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 = 40.4 bits (94), Expect = 1e-04
 Identities = 13/85 (15%), Positives = 24/85 (28%), Gaps = 10/85 (11%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
           R L + NLP   + + + +    +                       +G A+V +    D
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKY---------GPIRQIRVGNTPETRGTAYVVYEDIFD 58

Query: 524 ASAAL-CCDGCSFSGSILKIKRPKE 547
           A  A     G +     L +     
Sbjct: 59  AKNACDHLSGFNVCNRYLVVLYYNA 83

>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 = 41.2 bits (96), Expect = 3e-05
 Identities = 11/71 (15%), Positives = 31/71 (43%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGL 610
           + +  + + ++ +    +  + G +++     ++         F+ Y+D     KAI  L
Sbjct: 5   LIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64

Query: 611 NGLKVGGQVLT 621
           NGL++  + + 
Sbjct: 65  NGLRLQTKTIK 75

>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

>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 = 41.1 bits (96), Expect = 3e-05
 Identities = 12/70 (17%), Positives = 34/70 (48%), Gaps = 2/70 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++G +S   + + + E+    G +K     +++  +  C   F+EY  +     A+  +
Sbjct: 10  LYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI 69

Query: 611 NGLKVGGQVL 620
           NG ++  +++
Sbjct: 70  NGTRLDDRII 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 = 1e-04
 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

>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 = 41.1 bits (96), Expect = 3e-05
 Identities = 11/68 (16%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           +F+G +   ++ + + ++   +G       EV    ++   FI    + +   A   L+ 
Sbjct: 11  LFVGNLPPDITEEEMRKLFEKYGK----AGEVFIHKDKGFGFIRLETRTLAEIAKVELDN 66

Query: 613 LKVGGQVL 620
           + + G+ L
Sbjct: 67  MPLRGKQL 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

>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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP-----CAFIEYVDQLVTPKAI 607
           +FI  ++ + + + +  +    G +K+      ++           F+EY       KA+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 608 AGLNGLKVGGQVLT 621
             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 = 39.2 bits (91), 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

>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 = 9/70 (12%), Positives = 28/70 (40%), Gaps = 2/70 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++G +   ++  M+ E     GP+ +     +         A++ +       +A+  +
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 62

Query: 611 NGLKVGGQVL 620
           N   + G+ +
Sbjct: 63  NFDVIKGKPV 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

>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 = 40.9 bits (95), 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

>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 = 40.1 bits (93), 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

>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 = 39.7 bits (92), Expect = 1e-04
 Identities = 11/71 (15%), Positives = 31/71 (43%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           + + G+S   + + + E+   +GP+       ++        AF+ + +     +A    
Sbjct: 12  LGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA 71

Query: 611 NGLKVGGQVLT 621
           NG+++ G+ + 
Sbjct: 72  NGMELDGRRIR 82

>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

>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 = 39.2 bits (91), Expect = 1e-04
 Identities = 12/71 (16%), Positives = 32/71 (45%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           + +  + + ++ + +  +  A GP+       +         AF+++  ++ + +AI  L
Sbjct: 5   LIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL 64

Query: 611 NGLKVGGQVLT 621
           NG+ V  + L 
Sbjct: 65  NGITVRNKRLK 75

>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 = 38.9 bits (90), Expect = 2e-04
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 2/70 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +F+  I        + E  C +G +K  H  ++         A +EY        A   L
Sbjct: 10  LFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL 69

Query: 611 NGLKVGGQVL 620
           NG ++ GQ +
Sbjct: 70  NGAEIMGQTI 79

>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 = 38.9 bits (90), Expect = 2e-04
 Identities = 13/71 (18%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++GG+   +S  ++ E+    GP+   H   +    +     F+E++ +     AI  +
Sbjct: 12  VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 71

Query: 611 NGLKVGGQVLT 621
           + +K+ G+ + 
Sbjct: 72  DMIKLYGKPIR 82

>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 = 38.5 bits (89), Expect = 3e-04
 Identities = 13/71 (18%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +++GG++  +  K++      FG +      ++ + E+    AF+E+        AI  +
Sbjct: 8   LYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM 67

Query: 611 NGLKVGGQVLT 621
           N  ++ G+ + 
Sbjct: 68  NESELFGRTIR 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 = 37.7 bits (87), 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

>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 = 38.4 bits (89), Expect = 3e-04
 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           ++ GGI+  L+ +++ +    FG +     E+    E+  +F+ +        AI  +NG
Sbjct: 21  VYCGGIASGLTDQLMRQTFSPFGQIM----EIRVFPEKGYSFVRFSTHESAAHAIVSVNG 76

Query: 613 LKVGGQVL 620
             + G V+
Sbjct: 77  TTIEGHVV 84

>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

>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 = 38.1 bits (88), Expect = 5e-04
 Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 1/69 (1%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           I++G +   + +K + ++   +G ++      N     P AF+E+ D      A+ G +G
Sbjct: 17  IYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPPFAFVEFEDPRDAEDAVYGRDG 75

Query: 613 LKVGGQVLT 621
               G  L 
Sbjct: 76  YDYDGYRLR 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 = 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

>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 = 37.7 bits (87), Expect = 6e-04
 Identities = 11/69 (15%), Positives = 25/69 (36%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           + +  I        + ++   FG +       NE   +   F+ + +     +A   L+G
Sbjct: 14  LHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHG 73

Query: 613 LKVGGQVLT 621
             V G+ + 
Sbjct: 74  TVVEGRKIE 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

>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 = 14/84 (16%), Positives = 32/84 (38%), Gaps = 6/84 (7%)

Query: 550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAG 609
           +  + + G  +  +S     I+  F             +      I Y  +L   KA++ 
Sbjct: 4   DTWVTVFGFPQASAS----YILLQFAQYGNILK-HVMSNTGNWMHIRYQSKLQARKALS- 57

Query: 610 LNGLKVGGQVLTAVQAVLDGSIMD 633
            +G   G  ++  V+  +D ++M+
Sbjct: 58  KDGRIFGESIMIGVKPCIDKNVME 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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHF---EVNEDHEEPCAFIEYVDQLVTPKAIAG 609
           IFIG +   +  K++ +   AFG +        + +  + +  AFI +     +  AI  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 610 LNGLKVGGQVLT 621
           +NG  +  + +T
Sbjct: 61  MNGQYLCNRPIT 72

>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 = 37.3 bits (86), Expect = 7e-04
 Identities = 14/69 (20%), Positives = 34/69 (49%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           IFI  + +++ +K + +   AFG + +     +E+  +   F+ +  Q    +AI  +NG
Sbjct: 11  IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNG 70

Query: 613 LKVGGQVLT 621
           + +  + + 
Sbjct: 71  MLLNDRKVF 79

>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: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED--HEEPCAFIEYVDQLVTPKAIAGL 610
           ++I G+    + + ++++   +G + +    +++     +   F+++       KA+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 611 NGLKVGGQVL 620
               V  Q+ 
Sbjct: 61  KASGVQAQMA 70

>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

>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 = 36.3 bits (83), Expect = 0.002
 Identities = 9/69 (13%), Positives = 24/69 (34%), Gaps = 5/69 (7%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNG 612
           I +  + +  + + V +++  +            D  +  AF+  ++      AI   + 
Sbjct: 8   ILVKNLPQDSNCQEVHDLLKDYD-----LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQ 62

Query: 613 LKVGGQVLT 621
               G+ L 
Sbjct: 63  YSFRGKDLI 71

>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

>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 = 35.5 bits (81), Expect = 0.002
 Identities = 9/71 (12%), Positives = 26/71 (36%), Gaps = 2/71 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEP--CAFIEYVDQLVTPKAIAGL 610
           +++     + + + + +++     +       +         A+I+   +      +  L
Sbjct: 4   LWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL 63

Query: 611 NGLKVGGQVLT 621
           NGLK+ G  L 
Sbjct: 64  NGLKIEGYTLV 74

>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 = 35.5 bits (81), Expect = 0.004
 Identities = 18/75 (24%), Positives = 40/75 (53%), Gaps = 2/75 (2%)

Query: 553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPC--AFIEYVDQLVTPKAIAGL 610
           +F+  +S T S + + ++  A+GPL   H+ ++   ++P   AF+ ++      KA A +
Sbjct: 11  LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70

Query: 611 NGLKVGGQVLTAVQA 625
           +G    G++L  + +
Sbjct: 71  DGQVFQGRMLHVLPS 85

>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 = 35.5 bits (81), Expect = 0.004
 Identities = 22/85 (25%), Positives = 33/85 (38%), Gaps = 7/85 (8%)

Query: 464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAED 523
            RL V NL  ++SE+ L +  + +   S + +   SL              FV F+  E 
Sbjct: 9   GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFA------FVTFMFPEH 62

Query: 524 ASAAL-CCDGCSFSGSILKIKRPKE 547
           A  A    DG  F G +L +     
Sbjct: 63  AVKAYAEVDGQVFQGRMLHVLPSTI 87

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	943
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.9
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.83
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.65
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.58
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.56
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.56
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.55
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.54
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.54
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.53
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.53
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.53
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.53
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.53
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.53
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.51
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.5
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.5
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.5
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.5
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.49
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.48
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.48
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.47
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.47
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.47
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.47
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.47
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.47
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.47
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.46
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.46
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.45
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.45
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.45
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.45
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.45
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.44
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.44
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.44
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	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
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.43
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.43
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.43
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.43
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.43
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.43
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.43
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.43
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.42
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.42
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.42
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.42
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.42
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.42
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.42
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.41
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.41
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.41
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.41
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.4
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.4
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.4
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.4
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.4
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.4
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.4
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.39
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.39
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.39
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.39
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.39
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.39
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.39
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.39
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.38
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.38
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.38
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.38
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.38
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.38
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.38
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.37
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.37
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.37
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.37
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.37
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.37
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.36
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.36
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.35
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.35
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.35
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.35
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.35
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.35
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.35
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.35
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.35
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.35
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.34
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.34
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.34
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.34
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.34
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.34
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.33
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.33
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.33
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.33
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.33
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.33
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.33
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.33
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.32
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.32
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.32
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.32
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.31
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.31
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.31
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.31
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.3
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.3
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.3
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.3
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.29
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.29
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.29
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.29
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.29
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.28
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.28
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.27
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.26
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.26
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.26
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.25
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.25
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.24
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.24
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.24
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.24
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.23
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.23
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.23
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.23
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.22
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.21
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.2
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.2
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.2
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.19
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.17
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.16
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.15
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.15
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.14
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.13
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	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	99.08
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	99.08
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.04
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.0
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.98
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.95
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.93
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.88
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.87
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.85
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.02
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	95.51
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.02
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	93.95
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	91.52
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	89.17
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	82.32

>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=99.90  E-value=2.6e-24  Score=216.72  Aligned_cols=159  Identities=18%  Similarity=0.312  Sum_probs=135.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      .++|||||||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+|+.+++..+.++.+.+
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            4799999999999999999999999853322      2344556788999999999999999999998887787877776


Q ss_pred             cCCcc----------ceeEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHh
Q 002280          543 KRPKE----------FVEVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGL  610 (943)
Q Consensus       543 ~rp~d----------~~~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~L  610 (943)
                      .++..          ....+|||+|||..+++++|+++|+.||.|..+.|+.+.  +.++|||||+|.+.++|.+|+. +
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~  158 (183)
T d1u1qa_          80 KRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-Q  158 (183)
T ss_dssp             EECCCTTGGGSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-S
T ss_pred             hhhhhcccccccccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHH-h
Confidence            53321          112299999999999999999999999999999998874  4668999999999999999997 7


Q ss_pred             CCCccCCeEEEEEEcccC
Q 002280          611 NGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       611 nG~~~~gr~L~V~~A~~~  628 (943)
                      ++..|.|+.|.|.+|.+.
T Consensus       159 ~~~~~~G~~i~V~~A~~k  176 (183)
T d1u1qa_         159 KYHTVNGHNCEVRKALSK  176 (183)
T ss_dssp             SCEEETTEEEEEEECCCH
T ss_pred             CCCeECCEEEEEEecCCc
Confidence            999999999999998664

>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=4.1e-20  Score=185.69  Aligned_cols=164  Identities=12%  Similarity=0.158  Sum_probs=135.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+|+++|+++|++||.|..+.++++  ++.++|+|||+|.+.++|.+|+. +++..+.++.+.+....+..
T Consensus         8 ~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~~~~~~~~~~   86 (183)
T d1u1qa_           8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAVSRE   86 (183)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECCCTT
T ss_pred             EEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHH-hcCCcccccchhhhhhhhcc
Confidence            8999999999999999999999999999999887  45668999999999999999997 56677888888887654433


Q ss_pred             CcCCCCCCCCCCCCCCCcCCCCCCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecC-CCCCcc
Q 002280          630 SIMDNSGNPPFHGIPKHALPLLKKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKY-GDSNIS  708 (943)
Q Consensus       630 ~~~~~~~~~~~~~ip~~~~~~~~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~-~~g~~~  708 (943)
                      .....               ....+.+.|+|.||....+            .++|+++|+.||.|..|.|+.+ ..+..+
T Consensus        87 ~~~~~---------------~~~~~~~~i~V~~lp~~~t------------e~~L~~~f~~~G~v~~~~i~~~~~~~~~~  139 (183)
T d1u1qa_          87 DSQRP---------------GAHLTVKKIFVGGIKEDTE------------EHHLRDYFEQYGKIEVIEIMTDRGSGKKR  139 (183)
T ss_dssp             GGGST---------------TTTCCCSEEEEECCCTTCC------------HHHHHHHHGGGSCEEEEEEEECTTTCCEE
T ss_pred             ccccc---------------ccccccceeEEccCCCcCC------------HHHHhhhhccCCceeeeeeecccccCccc
Confidence            22111               1123567899999965333            2688999999999999999986 457889


Q ss_pred             eeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          709 TIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       709 G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      |||||+|.+.++|.+|+. |+|..|+++.+.|.+++
T Consensus       140 g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A~  174 (183)
T d1u1qa_         140 GFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKAL  174 (183)
T ss_dssp             EEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEECC
T ss_pred             eeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEecC
Confidence            999999999999999997 78889999998887654

>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=99.65  E-value=2.8e-16  Score=143.85  Aligned_cols=89  Identities=31%  Similarity=0.337  Sum_probs=82.1

Q ss_pred             CCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCC---cceeEEEEeCCHHHHHHHHHHhC
Q 002280          653 KPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSN---ISTIQACEGNENTASAGVGQNLT  729 (943)
Q Consensus       653 ~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~---~~G~~FVeF~~~e~A~~Ai~~Ln  729 (943)
                      .||+||+|.||+++++|  .++.++++|.+||+++|++||.|++|.|+++..+.   ..|++||+|.+.++|.+|+..||
T Consensus         2 ~Ps~vl~l~N~~~~~~l--~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~   79 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEEL--LDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLT   79 (104)
T ss_dssp             CCCSEEEEESSCCTTTT--TSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHS
T ss_pred             CCCcEEEEeCCCCHHHc--CCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHC
Confidence            58999999999999999  59999999999999999999999999999875443   45899999999999999999999


Q ss_pred             CCccCCCceEEEEe
Q 002280          730 NDETNEKGERLEEV  743 (943)
Q Consensus       730 Gr~~~~k~~~v~~~  743 (943)
                      |+.|++|.+.+...
T Consensus        80 Gr~f~gR~v~v~f~   93 (104)
T d1o0pa_          80 GRKFANRVVVTKYC   93 (104)
T ss_dssp             SCCSSSSCCEEEEE
T ss_pred             CCEECCeEEEEEEc
Confidence            99999999998764

>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=99.58  E-value=2.9e-16  Score=139.67  Aligned_cols=87  Identities=34%  Similarity=0.675  Sum_probs=78.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      .|+|||||||+.+|+++|+++|++||.+.++..... ..+.+..++.++|||||+|.+.++|+.|++|||..|.|+.|+|
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            479999999999999999999999998776654443 3678888999999999999999999999999999999999999


Q ss_pred             cCCcccee
Q 002280          543 KRPKEFVE  550 (943)
Q Consensus       543 ~rp~d~~~  550 (943)
                      .+|++|.+
T Consensus        80 ~r~k~~~p   87 (90)
T d1u2fa_          80 RRPHDYQP   87 (90)
T ss_dssp             BCTTCCSC
T ss_pred             CCCCCCCC
Confidence            99999864

>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=99.56  E-value=3.4e-15  Score=130.18  Aligned_cols=76  Identities=17%  Similarity=0.344  Sum_probs=71.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|..+.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.|
T Consensus         4 ~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           4 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            7999999999999999999999999999999887  345699999999999999999999999999999999999976

>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=4.8e-15  Score=129.13  Aligned_cols=76  Identities=16%  Similarity=0.319  Sum_probs=71.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  .+..+|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.|
T Consensus         4 ~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           4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            6999999999999999999999999999999887  346689999999999999999999999999999999999876

>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=99.55  E-value=9.3e-15  Score=129.86  Aligned_cols=79  Identities=20%  Similarity=0.476  Sum_probs=74.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||..+++++|+++|+.||+|..|.|+.+...++|||||+|.+.++|..|+..|||..|.|+.|.|.+|.+..
T Consensus         9 ~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~~   87 (90)
T d2cqia1           9 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPS   87 (90)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            3899999999999999999999999999999999877789999999999999999999999999999999999996643

>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=99.54  E-value=1.1e-14  Score=130.27  Aligned_cols=79  Identities=15%  Similarity=0.222  Sum_probs=75.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||+.+++++|+++|++||+|..|.|+.+.+.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        12 ~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~r~   90 (93)
T d2cq3a1          12 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV   90 (93)
T ss_dssp             CEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCcCC
Confidence            3899999999999999999999999999999999988889999999999999999999999999999999999997754

>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=6.4e-15  Score=129.60  Aligned_cols=78  Identities=40%  Similarity=0.674  Sum_probs=73.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||+|..|+|+++  ++.++|||||+|.+.++|..|+..|||..|+|+.|.|.+|.+..
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~~   82 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGA   82 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCCC
Confidence            6999999999999999999999999999999987  46779999999999999999999999999999999999996643

>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=99.53  E-value=5e-15  Score=131.34  Aligned_cols=77  Identities=18%  Similarity=0.361  Sum_probs=73.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..+.|+.+.+.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.+.
T Consensus        10 ~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2          10 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            79999999999999999999999999999999988888999999999999999999999999999999999998664

>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=99.53  E-value=1.1e-14  Score=125.92  Aligned_cols=75  Identities=16%  Similarity=0.263  Sum_probs=70.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+|||+.+++++|+++|++||+|..+.|..+ ++.++|||||+|.+.++|.+|+..|||..+.|++|.|.+|.
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            6999999999999999999999999999999887 45679999999999999999999999999999999999874

>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=99.53  E-value=7.3e-15  Score=127.63  Aligned_cols=75  Identities=12%  Similarity=0.258  Sum_probs=70.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      .|||+|||+.+|+++|+++|++||+|..|+|+++.  +.++|||||+|.+.++|..|+..|||..+.|++|+|.+|.
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            59999999999999999999999999999999874  5568999999999999999999999999999999999884

>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=99.53  E-value=6.1e-15  Score=130.81  Aligned_cols=78  Identities=17%  Similarity=0.328  Sum_probs=73.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||+|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.|..
T Consensus         7 tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p~~   86 (89)
T d2cqba1           7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPMR   86 (89)
T ss_dssp             CEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCCCC
Confidence            8999999999999999999999999999999877  46789999999999999999999999999999999999997643

>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=99.53  E-value=8.8e-15  Score=130.91  Aligned_cols=78  Identities=18%  Similarity=0.390  Sum_probs=73.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+..
T Consensus        11 tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~~~   90 (93)
T d1x5ua1          11 TVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAHN   90 (93)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTTTS
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            8999999999999999999999999999999887  45679999999999999999999999999999999999997754

>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=99.53  E-value=1.2e-14  Score=128.66  Aligned_cols=78  Identities=21%  Similarity=0.388  Sum_probs=73.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|.++|++||.|..|+|+.+  ++.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus         8 ~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~~k   87 (88)
T d1rk8a_           8 WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVK   87 (88)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEecCC
Confidence            38999999999999999999999999999999987  3567899999999999999999999999999999999999764

>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=99.51  E-value=1.1e-14  Score=129.28  Aligned_cols=78  Identities=19%  Similarity=0.284  Sum_probs=73.2

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..|||..|+|+.|.|.+|.|.
T Consensus         9 ~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~akp~   88 (90)
T d2cq0a1           9 ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKPS   88 (90)
T ss_dssp             EEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeeeCC
Confidence            38999999999999999999999999999999987  3567999999999999999999999999999999999999764

>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=99.50  E-value=3.5e-14  Score=128.30  Aligned_cols=78  Identities=22%  Similarity=0.431  Sum_probs=73.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||..|||..|.|+.|.|.+|.+..
T Consensus        10 ~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~~~   89 (99)
T d1whwa_          10 RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIKK   89 (99)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCCCS
T ss_pred             EEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            8999999999999999999999999999999877  46679999999999999999999999999999999999987654

>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=99.50  E-value=2.5e-14  Score=128.15  Aligned_cols=80  Identities=18%  Similarity=0.273  Sum_probs=73.3

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHh-CCCccCCeEEEEEEc
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGL-NGLKVGGQVLTAVQA  625 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~L-nG~~~~gr~L~V~~A  625 (943)
                      ..+|||+|||..+++++|+++|++||.|..|.|+.+   ++.++|||||+|.+.++|.+|+..| ||..|.|+.|.|.+|
T Consensus         8 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A   87 (94)
T d2cpha1           8 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWA   87 (94)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEc
Confidence            348999999999999999999999999999999776   4567999999999999999999998 899999999999999


Q ss_pred             ccCC
Q 002280          626 VLDG  629 (943)
Q Consensus       626 ~~~~  629 (943)
                      .+..
T Consensus        88 ~~~~   91 (94)
T d2cpha1          88 DSEV   91 (94)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6644

>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=2.5e-14  Score=126.92  Aligned_cols=78  Identities=17%  Similarity=0.324  Sum_probs=72.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|.++|++||.|..+.++.+  ++.++|||||+|.+.++|..|+..|||..|+|+.|.|.+|.+..
T Consensus         7 kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~~~   86 (90)
T d1x5sa1           7 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSS   86 (90)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEECCC
T ss_pred             EEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            8999999999999999999999999999988765  45679999999999999999999999999999999999987644

>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=2.1e-14  Score=124.90  Aligned_cols=76  Identities=12%  Similarity=0.182  Sum_probs=67.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|++||.|..+.++.+  .+.++|||||+|.+.++|.+|+..|||..|.|++|.|.+|.|
T Consensus         3 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           3 TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             EEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            7999999999999999999999999988777655  456799999999999999999999999999999999999866

>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=99.49  E-value=3.5e-14  Score=126.95  Aligned_cols=76  Identities=14%  Similarity=0.304  Sum_probs=71.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||+|..|.|+.+.  +.++|||||+|.+.++|..|+..|||..|.|++|.|.+|..
T Consensus         9 tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~~   86 (93)
T d1h2vz_           9 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG   86 (93)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            89999999999999999999999999999998873  55689999999999999999999999999999999999843

>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=3.2e-14  Score=125.01  Aligned_cols=74  Identities=23%  Similarity=0.474  Sum_probs=68.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCC--eEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..++|+.+.  +.++|||||+|.+.++|.+|++.|||..+.|  ++|.|.+|
T Consensus         8 ~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           8 NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            79999999999999999999999999999999873  5679999999999999999999999999987  55888875

>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=99.48  E-value=3.5e-14  Score=124.54  Aligned_cols=75  Identities=19%  Similarity=0.310  Sum_probs=69.1

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      |||+|||..+++++|+++|++||.|..+.|+.+..     .++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
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            79999999999999999999999999999987733     2479999999999999999999999999999999998743

>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=99.47  E-value=3.2e-14  Score=129.37  Aligned_cols=78  Identities=15%  Similarity=0.339  Sum_probs=72.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|+.||.|..+.++.+  ++.++|||||+|.+.++|..||..|||..|+|+.|.|.+|.+..
T Consensus        20 ~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~k~   99 (102)
T d2cpza1          20 NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKN   99 (102)
T ss_dssp             CEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCCSC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCCCC
Confidence            8999999999999999999999999999998887  45678999999999999999999999999999999999986643

>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=99.47  E-value=2.7e-14  Score=122.53  Aligned_cols=73  Identities=19%  Similarity=0.384  Sum_probs=67.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+++++|+++|++||.|..+.|+.+.  +.++|||||+|.+.++|.+||. +++..|.|+.|.|.+|
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            58999999999999999999999999999998874  5679999999999999999997 8999999999998754

>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=99.47  E-value=3.6e-14  Score=123.88  Aligned_cols=77  Identities=22%  Similarity=0.363  Sum_probs=69.6

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      |||+|||..+++++|+++|++||.|.. +.|+++  ++.++|||||+|.+.++|.+|+..|||..|.|++|.|.+|.+..
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            799999999999999999999999865 467766  45678999999999999999999999999999999999987643

>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=99.47  E-value=3.4e-14  Score=126.53  Aligned_cols=79  Identities=22%  Similarity=0.309  Sum_probs=70.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|.+||.+..+       .+++..+|.++|||||+|.+.++|..||+|||..|.|++|
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            346799999999999999999999999975543       4456678999999999999999999999999999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.+++
T Consensus        84 ~V~~ak   89 (91)
T d1fjeb1          84 KLEKPK   89 (91)
T ss_dssp             EEECCC
T ss_pred             EEEecC
Confidence            998764

>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=6e-14  Score=122.98  Aligned_cols=74  Identities=22%  Similarity=0.317  Sum_probs=69.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+|||+.+++++|.++|++||.|..+.|+.+  ++.++|||||+|.+.++|.+|++ ++|..|.|+.|.|..|.
T Consensus         8 ~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           8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEeee
Confidence            8999999999999999999999999999999987  45679999999999999999997 69999999999999874

>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=99.47  E-value=4.7e-14  Score=123.83  Aligned_cols=74  Identities=20%  Similarity=0.349  Sum_probs=69.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCC--eEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|++||.|..++|+++  ++.++|||||+|.+.++|.+|+..|||..+.|  ++|.|.+|
T Consensus         8 ~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2           8 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            7999999999999999999999999999999987  45678999999999999999999999999866  88999886

>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=99.47  E-value=5e-14  Score=123.03  Aligned_cols=71  Identities=15%  Similarity=0.292  Sum_probs=67.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTA  622 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V  622 (943)
                      +|||+|||..+|+++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|
T Consensus        11 ~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          11 CLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            89999999999999999999999999999998874  567899999999999999999999999999999987

>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=5.4e-14  Score=127.71  Aligned_cols=75  Identities=15%  Similarity=0.301  Sum_probs=70.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||.|..|.|+++  ++.++|||||+|.+.++|.+|+. |||..|.|+.|.|.+|.+
T Consensus        20 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          20 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECCC
Confidence            8999999999999999999999999999999987  46789999999999999999995 999999999999998754

>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=3.5e-14  Score=122.49  Aligned_cols=73  Identities=21%  Similarity=0.335  Sum_probs=68.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+++++|+++|++||.|..+.|+.+.  +.++|||||+|.+.++|.+|+. +|+..|+|+.|.|..|
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            69999999999999999999999999999999874  5679999999999999999997 7999999999999876

>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=99.45  E-value=8.2e-14  Score=133.61  Aligned_cols=79  Identities=18%  Similarity=0.352  Sum_probs=73.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|..||..|||..|.|+.|.|.+|.+..
T Consensus        44 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~~~  123 (139)
T d1u6fa1          44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASGH  123 (139)
T ss_dssp             EEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            89999999999999999999999999999998874  4578999999999999999999999999999999999987654


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus       124 ~  124 (139)
T d1u6fa1         124 Q  124 (139)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.45  E-value=3e-14  Score=122.15  Aligned_cols=75  Identities=17%  Similarity=0.321  Sum_probs=64.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||+|||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|+.||++++..|.|+.|.|.+
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 KMFIGGLSWDTTKKDLKDYFSKFGEVVDC------TLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhcccccc------ccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeE
Confidence            59999999999999999999999864332      134455678899999999999999999999999999999999976


Q ss_pred             C
Q 002280          545 P  545 (943)
Q Consensus       545 p  545 (943)
                      +
T Consensus        75 A   75 (75)
T d1hd0a_          75 A   75 (75)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.45  E-value=1.7e-14  Score=126.61  Aligned_cols=78  Identities=19%  Similarity=0.356  Sum_probs=67.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|.++|+.||.+..+      ..+.+..++.++|||||+|.+.++|.+||++++..|.|+.|+
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 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDC------VVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVE   78 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccce------eecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEE
Confidence            45799999999999999999999999864332      134555678899999999999999999999999999999999


Q ss_pred             ccCC
Q 002280          542 IKRP  545 (943)
Q Consensus       542 V~rp  545 (943)
                      |.++
T Consensus        79 V~~A   82 (84)
T d1l3ka1          79 PKRA   82 (84)
T ss_dssp             EEEC
T ss_pred             EEee
Confidence            9765

>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=99.45  E-value=4.7e-14  Score=128.57  Aligned_cols=77  Identities=23%  Similarity=0.455  Sum_probs=72.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..|.|+.+.  +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        10 tl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~~   88 (104)
T d1p1ta_          10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE   88 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCT
T ss_pred             EEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            79999999999999999999999999999998873  556899999999999999999999999999999999998654

>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=99.45  E-value=1.4e-13  Score=125.34  Aligned_cols=77  Identities=17%  Similarity=0.282  Sum_probs=71.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+|+..+|+ .|.|+.|.|.+|.+..
T Consensus        12 ~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~~~~   90 (103)
T d2cqda1          12 KIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYLGA   90 (103)
T ss_dssp             EEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTTTC
T ss_pred             EEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcCCCC
Confidence            7999999999999999999999999999999887  467899999999999999999999887 6999999999886543

>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=6e-14  Score=119.87  Aligned_cols=73  Identities=15%  Similarity=0.310  Sum_probs=67.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+|+++|+++|+.||.|..+.+..+  ++..+|||||+|.+.++|.+|++ |||..|+|++|.|.+|
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            5899999999999999999999999999988776  35679999999999999999996 9999999999999876

>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=99.44  E-value=1.2e-13  Score=127.81  Aligned_cols=75  Identities=16%  Similarity=0.332  Sum_probs=70.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|.++|++||.|..|.+..+ +.++|||||+|.+.++|..|+..|||..|.|+.|.|.++.+
T Consensus         9 ~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~-~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1           9 ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT-PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS-TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             EEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc-CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            8999999999999999999999999999998764 45689999999999999999999999999999999998754

>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=99.44  E-value=5.1e-14  Score=125.83  Aligned_cols=81  Identities=23%  Similarity=0.232  Sum_probs=68.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v------~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~   80 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNT------HMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKP   80 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCB
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhCCcccc------ceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            345799999999999999999999999864332      134555678899999999999999999998 9999999999


Q ss_pred             ccccCCcc
Q 002280          540 LKIKRPKE  547 (943)
Q Consensus       540 LkV~rp~d  547 (943)
                      |+|.++..
T Consensus        81 l~V~~A~~   88 (93)
T d1x5ua1          81 IRVNKASA   88 (93)
T ss_dssp             CEEEETTT
T ss_pred             EEEEEcCC
Confidence            99987543

>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=1.2e-13  Score=119.31  Aligned_cols=73  Identities=18%  Similarity=0.312  Sum_probs=67.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecC--CCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNE--DHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~--~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+|+++|+++|++||.|..+.+..+.  +.++|||||+|.+.++|.+|+. |||..|.|+.|.|..|
T Consensus         4 ~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           4 KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             EEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             EEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            79999999999999999999999999999998874  4568999999999999999985 8999999999999977

>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=9.1e-14  Score=123.48  Aligned_cols=76  Identities=11%  Similarity=0.201  Sum_probs=69.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+|+++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||..+  ..|.|+.|.|.+|.+..
T Consensus        10 ~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~--~~l~Gr~i~v~~a~~k~   87 (90)
T d2cqga1          10 DLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR--HMIDGRWCDCKLPNSKQ   87 (90)
T ss_dssp             CEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSC--EEETTEEEEEECCCTTC
T ss_pred             eEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcC--CccCCEEeEEEeCCCCC
Confidence            8999999999999999999999999999999987  4667999999999999999999854  47899999999886643

>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=1.1e-13  Score=125.95  Aligned_cols=77  Identities=18%  Similarity=0.288  Sum_probs=71.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++||.|..+.|+.+  ++.++|||||+|.+.++|.+||. ++|..|.|+.|.|.+|.+..
T Consensus        22 ~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a~~ke  100 (103)
T d1x4ba1          22 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRAVARE  100 (103)
T ss_dssp             EEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECCSSCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEECcccC
Confidence            8999999999999999999999999999999887  45679999999999999999996 89999999999999887643

>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=99.43  E-value=2.6e-14  Score=123.56  Aligned_cols=77  Identities=12%  Similarity=0.208  Sum_probs=65.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      .++|||||||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+|+.+||..|.|++|+|
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 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVI------EIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV   75 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhcccccc------ccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEE
Confidence            4799999999999999999999999864332      1334445678899999999999999999999999999999999


Q ss_pred             cCC
Q 002280          543 KRP  545 (943)
Q Consensus       543 ~rp  545 (943)
                      .++
T Consensus        76 ~~A   78 (79)
T d1l3ka2          76 RKA   78 (79)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            753

>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=99.43  E-value=1e-13  Score=122.00  Aligned_cols=74  Identities=14%  Similarity=0.275  Sum_probs=70.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..|.+.++    +|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.+
T Consensus        10 ~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~~   83 (86)
T d2cpja1          10 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA   83 (86)
T ss_dssp             EEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCS
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCcC
Confidence            7999999999999999999999999999998764    7999999999999999999999999999999999997654

>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=1.6e-13  Score=117.61  Aligned_cols=73  Identities=14%  Similarity=0.141  Sum_probs=69.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+++++|+++|+.||.|..+.+..+.+..+++|||+|.+.++|.+|+. |||..|+|+.|.|..+
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            699999999999999999999999999999999887788999999999999999985 8999999999999865

>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=99.43  E-value=8.5e-14  Score=133.51  Aligned_cols=80  Identities=20%  Similarity=0.314  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+++|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|+.
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            345789999999999999999999999953321      133444567889999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|.+..
T Consensus       114 l~V~~a~  120 (139)
T d1u6fa1         114 LKVALAA  120 (139)
T ss_dssp             EEEEESS
T ss_pred             EEEEEcC
Confidence            9998543

>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=99.43  E-value=5e-14  Score=122.64  Aligned_cols=77  Identities=19%  Similarity=0.231  Sum_probs=65.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||+.+|+++|+++|++||.+..   +   ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|+
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 NTNLIVNYLPQDMTDRELYALFRAIGPINT---C---RIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK   75 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEE---E---ECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcce---e---eeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            458999999999999999999999985332   1   234455667889999999999999999998 999999999999


Q ss_pred             ccCC
Q 002280          542 IKRP  545 (943)
Q Consensus       542 V~rp  545 (943)
                      |.++
T Consensus        76 v~~a   79 (82)
T d1b7fa1          76 VSYA   79 (82)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9854

>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=99.43  E-value=4.1e-14  Score=125.36  Aligned_cols=80  Identities=26%  Similarity=0.313  Sum_probs=68.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDI------QIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRT   76 (89)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCE------ECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEec------ccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            346899999999999999999999999864432      234556678999999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|.++.
T Consensus        77 l~v~~a~   83 (89)
T d2cqba1          77 IRVNLAK   83 (89)
T ss_dssp             EEEEECC
T ss_pred             EEEEEeC
Confidence            9997543

>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=99.43  E-value=1.2e-13  Score=124.98  Aligned_cols=88  Identities=19%  Similarity=0.311  Sum_probs=78.0

Q ss_pred             CCCceEEEeccCCCcCCCCCCChHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCC
Q 002280          652 KKPTEVLKLKNVFNPEGFSSLSELEVEEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTND  731 (943)
Q Consensus       652 ~~ps~vL~L~Nlv~~~~l~~i~~~~~~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr  731 (943)
                      ..++++|+|.||+++.++. -++..+.+|.+||+++|++||.|..|.|+.+.   ..|++||+|.+.++|.+|+..|||+
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            3578999999999998863 24567899999999999999999999998864   4689999999999999999999999


Q ss_pred             ccCCCceEEEEe
Q 002280          732 ETNEKGERLEEV  743 (943)
Q Consensus       732 ~~~~k~~~v~~~  743 (943)
                      +|+++.+.+...
T Consensus        81 ~~~gr~i~v~~~   92 (99)
T d2dita1          81 WFGGRQITAQAW   92 (99)
T ss_dssp             EETTEECEEEEC
T ss_pred             EECCEEEEEEEe
Confidence            999999998654

>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=9.5e-14  Score=122.17  Aligned_cols=75  Identities=19%  Similarity=0.347  Sum_probs=66.6

Q ss_pred             EEEEecCCCCCC-HHHHHHHHhhcCCeeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLS-SKMVMEIVCAFGPLKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~t-eedL~e~Fs~fG~I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.++ +++|+++|++||.|..|.|+.+   ++.++|||||+|.+.++|.+|++ |||..|+|+.|.|.+|.+
T Consensus         6 ~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a~~   84 (86)
T d2ghpa3           6 EIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLADK   84 (86)
T ss_dssp             EEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEECCC
T ss_pred             EEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEcCC
Confidence            899999999876 5569999999999999998764   45679999999999999999995 999999999999999865

>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=99.42  E-value=1.6e-13  Score=123.33  Aligned_cols=76  Identities=21%  Similarity=0.311  Sum_probs=68.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .+..++|||+|||..+|+++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. |||..|.|+
T Consensus        15 ~~~~~~l~v~nL~~~~te~~L~~~F~~fG------------~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~   82 (96)
T d1x4ga1          15 SPKNCTVYCGGIASGLTDQLMRQTFSPFG------------QIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGH   82 (96)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHS------------CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHHhC------------CceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            34567999999999999999999999998            56777777889999999999999999998 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      +|+|.+.+.
T Consensus        83 ~l~v~~ak~   91 (96)
T d1x4ga1          83 VVKCYWGKE   91 (96)
T ss_dssp             ECEEECCCC
T ss_pred             EEEEEEcCC
Confidence            999987653

>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=99.42  E-value=5.3e-14  Score=124.74  Aligned_cols=79  Identities=24%  Similarity=0.376  Sum_probs=67.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..+      ..+....++.++|||||+|.+.++|..|+. |||..|.|++
T Consensus         3 ~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~------~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~   76 (90)
T d1x5sa1           3 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEV------VVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQ   76 (90)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEE------EECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHhhhccccccce------eeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            456889999999999999999999999864332      123444568899999999999999999998 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|.++
T Consensus        77 l~V~~a   82 (90)
T d1x5sa1          77 IRVDQA   82 (90)
T ss_dssp             CEEEEE
T ss_pred             EEEEEc
Confidence            999853

>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=99.42  E-value=5.8e-14  Score=119.95  Aligned_cols=74  Identities=12%  Similarity=0.236  Sum_probs=64.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||||||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||++||..|.|++|+|++
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~------~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~   74 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDA------MLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEE------CCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCccee------eeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEE
Confidence            59999999999999999999999864332      133445568899999999999999999999999999999999975

>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=99.42  E-value=1.9e-13  Score=122.90  Aligned_cols=73  Identities=18%  Similarity=0.397  Sum_probs=69.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|+++|++||.|..|+|+++    +|||||+|.+.++|.+|+..|||..|+|+.|+|.||.+.
T Consensus        20 ~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~   92 (96)
T d1x4ga1          20 TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES   92 (96)
T ss_dssp             EEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             EEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            8999999999999999999999999999999875    899999999999999999999999999999999998653

>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=99.42  E-value=4.1e-14  Score=124.38  Aligned_cols=80  Identities=19%  Similarity=0.226  Sum_probs=67.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|+.||.+..+       .+..-.++.++|||||+|.+.++|.+||+++|..|.|+.|.
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            35799999999999999999999999864332       22233457789999999999999999999999999999999


Q ss_pred             ccCCccc
Q 002280          542 IKRPKEF  548 (943)
Q Consensus       542 V~rp~d~  548 (943)
                      |.+..+|
T Consensus        78 v~~~~dy   84 (85)
T d1zh5a2          78 ILFKDDY   84 (85)
T ss_dssp             EEEGGGC
T ss_pred             EEEcCCC
Confidence            9876664

>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=8e-14  Score=119.57  Aligned_cols=73  Identities=19%  Similarity=0.320  Sum_probs=66.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+|+++|+++|++||.|..|.|+.+  ++.++|||||+|.+.++|.+||. +++..|+|+.|.|..|
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            6999999999999999999999999999999887  46679999999999999999996 5778899999998754

>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=99.42  E-value=7.4e-14  Score=126.95  Aligned_cols=79  Identities=19%  Similarity=0.194  Sum_probs=67.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +..+|||+|||+.+|+++|+++|+.||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
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            45689999999999999999999999853332      244556678899999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.+..
T Consensus        91 ~V~~a~   96 (102)
T d2cpza1          91 KVQLKR   96 (102)
T ss_dssp             EEECCC
T ss_pred             EEEEeC
Confidence            998644

>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=99.41  E-value=3.4e-14  Score=122.54  Aligned_cols=75  Identities=16%  Similarity=0.280  Sum_probs=65.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIK  543 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~  543 (943)
                      ++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+||++|+..|.|+.|.|.
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 CKMFIGGLSWQTTQEGLREYFGQFGEVKEC------LVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPK   74 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCE------EEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCccee------eeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEE
Confidence            479999999999999999999999864332      23456677899999999999999999999999999999999886


Q ss_pred             C
Q 002280          544 R  544 (943)
Q Consensus       544 r  544 (943)
                      .
T Consensus        75 ~   75 (77)
T d1uawa_          75 V   75 (77)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.41  E-value=4.6e-14  Score=122.50  Aligned_cols=76  Identities=24%  Similarity=0.256  Sum_probs=65.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      .|||||||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.++++|..||. |||..|.|++|+|.
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 SLYVGDLHPDVTEAMLYEKFSPAGPILSI------RVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIM   75 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEE------EEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            59999999999999999999999864332      233445668889999999999999999998 99999999999997


Q ss_pred             CCc
Q 002280          544 RPK  546 (943)
Q Consensus       544 rp~  546 (943)
                      +.+
T Consensus        76 ~a~   78 (80)
T d1cvja1          76 WSQ   78 (80)
T ss_dssp             ECC
T ss_pred             EeC
Confidence            653

>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=99.41  E-value=4.6e-14  Score=123.27  Aligned_cols=75  Identities=27%  Similarity=0.341  Sum_probs=63.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      +.++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
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            45789999999999999999999999853322      133444567889999999999999999998 99999999999


Q ss_pred             cc
Q 002280          541 KI  542 (943)
Q Consensus       541 kV  542 (943)
                      +|
T Consensus        82 ~V   83 (83)
T d2cqca1          82 RV   83 (83)
T ss_dssp             EE
T ss_pred             EC
Confidence            86

>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=99.41  E-value=1.3e-13  Score=119.61  Aligned_cols=75  Identities=20%  Similarity=0.284  Sum_probs=68.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCC-ccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGL-KVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~-~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..+.+..    .+|||||+|.+.++|.+|++.|||. .|.|+.|.|.+|.|...
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~----~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~~   78 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKKL   78 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec----ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcCc
Confidence            699999999999999999999999998776665    4899999999999999999999996 69999999999987543

>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=99.40  E-value=4.5e-14  Score=124.05  Aligned_cols=77  Identities=19%  Similarity=0.299  Sum_probs=66.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      .+|||+|||+.+|+++|+++|++||.+..+      ..+.+..+|.++|||||+|.++++|..|+. |||..|.|++|.|
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 HKLFIGGLPNYLNDDQVKELLTSFGPLKAF------NLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV   75 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEE------EEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceE------EeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            589999999999999999999999864332      233455678999999999999999999999 9999999999999


Q ss_pred             cCCc
Q 002280          543 KRPK  546 (943)
Q Consensus       543 ~rp~  546 (943)
                      .+++
T Consensus        76 ~~A~   79 (85)
T d2u2fa_          76 QRAS   79 (85)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            8764

>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=3.4e-13  Score=120.81  Aligned_cols=77  Identities=18%  Similarity=0.390  Sum_probs=70.3

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          550 EVAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       550 ~~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      ..+|||+|||+.+++++|+++|+.||.|..+.+..+ ..++|||||+|.+.++|.+|+..|||..|.|++|.|.+|.+
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~-~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc-ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            338999999999999999999999999999887543 45689999999999999999999999999999999998855

>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=99.40  E-value=2.3e-13  Score=120.65  Aligned_cols=79  Identities=23%  Similarity=0.309  Sum_probs=64.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ..++++|||+|||+.+|+++|+++|++||.+..+.      .+.+  ....+|||||+|.+.++|..|+. |||..|.|+
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 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCK------MITE--HTSNDPYCFVEFYEHRDAAAALAAMNGRKILGK   76 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEE------EECC--CCSSCCEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeee------eecc--cCccceeeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45678999999999999999999999998532211      1111  23458999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|.+++
T Consensus        77 ~i~v~~a~   84 (90)
T d2cqia1          77 EVKVNWAT   84 (90)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEcC
Confidence            99998654

>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=99.40  E-value=2.5e-14  Score=129.92  Aligned_cols=77  Identities=19%  Similarity=0.223  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILK  541 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~Lk  541 (943)
                      ..++|||+|||+.+|+++|+++|+.||.+..+      ..+.+..+|.++|||||+|.+.++|.+||.|||..|.|++|.
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 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDV------RIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPII   90 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEE------EECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHcCCCeEEEE------EeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEE
Confidence            35799999999999999999999999864332      234556678999999999999999999999999999999999


Q ss_pred             ccC
Q 002280          542 IKR  544 (943)
Q Consensus       542 V~r  544 (943)
                      |..
T Consensus        91 V~~   93 (101)
T d2cq4a1          91 VQA   93 (101)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            875

>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=99.40  E-value=4e-13  Score=118.01  Aligned_cols=74  Identities=15%  Similarity=0.207  Sum_probs=68.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..+.+..    ++|||||+|.+.++|..|+..|||..|.|+.|.|.+|.|..
T Consensus        10 ~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~----~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~   83 (86)
T d2cpda1          10 ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK----IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   83 (86)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE----CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             EEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc----ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCC
Confidence            899999999999999999999999998887754    58999999999999999999999999999999999987643

>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=99.40  E-value=8.2e-14  Score=128.99  Aligned_cols=103  Identities=14%  Similarity=0.135  Sum_probs=78.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ..+++|||+|||..+|+++|.++|++||.+..         |.-...+.++|||||+|.+.++|..|+. |||..|.|+.
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~---------i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~   75 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQ---------IRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRY   75 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEE---------EEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCeEe---------ecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            34689999999999999999999999985322         1112346779999999999999999998 9999999999


Q ss_pred             ccccCCccceeEEEEEecCCCCCCHHHHHHHHhhcCC
Q 002280          540 LKIKRPKEFVEVAIFIGGISRTLSSKMVMEIVCAFGP  576 (943)
Q Consensus       540 LkV~rp~d~~~~~LfV~NLp~~~teedL~e~Fs~fG~  576 (943)
                      |.|........    .........++++..+.++||.
T Consensus        76 l~V~~a~~~~~----~~~~~~~~~~~~~~~~~~~~g~  108 (114)
T d2f9da1          76 LVVLYYNANRA----FQKMDTKKKEEQLKLLKEKYGI  108 (114)
T ss_dssp             CEEEECCHHHH----TTTSCHHHHHHHHHHHHHHHCC
T ss_pred             EEEEEcCCCch----hhhhHHHHHHHHHHHHHHHhCC
Confidence            99975432100    0122223446778888888884

>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=99.40  E-value=1.1e-13  Score=120.17  Aligned_cols=71  Identities=20%  Similarity=0.307  Sum_probs=61.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCC-cccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGC-SFSGSILK  541 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~-~l~Gr~Lk  541 (943)
                      ++|||+|||+++|+++|+++|.+||.            +..+.+..++|||||+|.+.++|..|++ |||. .|.|++|+
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            47999999999999999999999884            3344455679999999999999999998 9995 79999999


Q ss_pred             ccCCc
Q 002280          542 IKRPK  546 (943)
Q Consensus       542 V~rp~  546 (943)
                      |.+..
T Consensus        70 V~~a~   74 (80)
T d2cqha1          70 VDYSV   74 (80)
T ss_dssp             EEECC
T ss_pred             EEEcC
Confidence            98643

>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=99.39  E-value=1.2e-13  Score=119.19  Aligned_cols=73  Identities=25%  Similarity=0.278  Sum_probs=62.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccccc
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIK  543 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~  543 (943)
                      +|||+|||+.+|+++|+++|++||.+..+       .+.....+.++|||||+|.+.++|..|+. |||..|.|++|+|.
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 KLLVSNLDFGVSDADIQELFAEFGTLKKA-------AVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQ   74 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEE-------EESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEE-------EEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            69999999999999999999999964332       11122367889999999999999999998 99999999999986


Q ss_pred             C
Q 002280          544 R  544 (943)
Q Consensus       544 r  544 (943)
                      .
T Consensus        75 ~   75 (78)
T d1no8a_          75 L   75 (78)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.39  E-value=2.6e-13  Score=119.20  Aligned_cols=72  Identities=29%  Similarity=0.347  Sum_probs=64.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|++||.            +..+.++.++|||||+|.+.++|..|+. |||..|.|+.|
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            4579999999999999999999999873            3345567889999999999999999999 99999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      .|.++
T Consensus        75 ~V~~a   79 (86)
T d2cpda1          75 EVTLA   79 (86)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99853

>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=99.39  E-value=8.2e-14  Score=123.15  Aligned_cols=79  Identities=20%  Similarity=0.163  Sum_probs=66.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNI------HLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT   78 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccc------cccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEE
Confidence            346799999999999999999999999864332      133445568889999999999999999998 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|.++
T Consensus        79 l~V~~a   84 (88)
T d1rk8a_          79 IQVDWC   84 (88)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            999764

>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=99.39  E-value=1.1e-13  Score=124.95  Aligned_cols=80  Identities=30%  Similarity=0.410  Sum_probs=67.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ..+.+|||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++
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 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSEL------HYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEE------ECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceee------eecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            346789999999999999999999998853322      133455678899999999999999999998 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|....
T Consensus        80 i~V~~a~   86 (99)
T d1whwa_          80 LHVLPST   86 (99)
T ss_dssp             EEEEECC
T ss_pred             EEEEECC
Confidence            9998544

>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=99.39  E-value=2e-13  Score=123.45  Aligned_cols=87  Identities=22%  Similarity=0.230  Sum_probs=69.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccC--CcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHG--SLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~--~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      ....+|||+|||+.+|+++|+++|.+||.+..+.....  .....+..++.++|||||+|.+.++|..||. |||..|.|
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            45689999999999999999999999986533222111  1112233457889999999999999999999 99999999


Q ss_pred             ccccccCCcc
Q 002280          538 SILKIKRPKE  547 (943)
Q Consensus       538 r~LkV~rp~d  547 (943)
                      ++|+|.+++.
T Consensus        86 r~i~V~~a~~   95 (101)
T d2cpea1          86 SKLKVSLARK   95 (101)
T ss_dssp             EECEEECSSC
T ss_pred             EEEEEEEcCC
Confidence            9999997654

>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=99.39  E-value=1.1e-13  Score=123.52  Aligned_cols=79  Identities=19%  Similarity=0.288  Sum_probs=66.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ..+++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|++
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 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKI------IMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRI   78 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCccee------ccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            457899999999999999999999999853322      133444567889999999999999999998 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |+|.+.
T Consensus        79 i~V~~a   84 (93)
T d1h2vz_          79 IRTDWD   84 (93)
T ss_dssp             CEEEEE
T ss_pred             EEEEEc
Confidence            999753

>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=99.39  E-value=1.5e-13  Score=119.83  Aligned_cols=76  Identities=18%  Similarity=0.201  Sum_probs=64.6

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccccC
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKR  544 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~r  544 (943)
                      |||+|||+++|+++|+++|++||.+....     ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|+|.+
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 IFIGNLDPEIDEKLLYDTFSAFGVILQTP-----KIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   75 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCC-----EECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeE-----EEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEE
Confidence            89999999999999999999998643311     123455678899999999999999999998 999999999999986


Q ss_pred             Cc
Q 002280          545 PK  546 (943)
Q Consensus       545 p~  546 (943)
                      +.
T Consensus        76 a~   77 (83)
T d1x5ta1          76 AF   77 (83)
T ss_dssp             SC
T ss_pred             ec
Confidence            43

>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=99.39  E-value=1.5e-13  Score=126.44  Aligned_cols=73  Identities=21%  Similarity=0.202  Sum_probs=66.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +..++|||+|||+.+|+++|+++|..||            .|..+.+..++|||||+|.+.++|..||. |||..|.|++
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            4457999999999999999999999988            56677778899999999999999999999 9999999999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|.+.
T Consensus        76 l~v~~a   81 (111)
T d1whxa_          76 LYLEWA   81 (111)
T ss_dssp             CEEEEE
T ss_pred             EEEEEC
Confidence            998753

>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=99.38  E-value=8.9e-14  Score=126.68  Aligned_cols=78  Identities=21%  Similarity=0.371  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKI  542 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV  542 (943)
                      .++|||||||+.+|+++|+++|.+||.+..+      .++.+..++.++|||||+|.+.++|.+||.++|..|.|+.|.|
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 FRKLFIGGLSFETTEESLRNYYEQWGKLTDC------VVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEP   93 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEE------EEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccce------eecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEE
Confidence            4789999999999999999999999864332      1223445678999999999999999999999999999999999


Q ss_pred             cCCc
Q 002280          543 KRPK  546 (943)
Q Consensus       543 ~rp~  546 (943)
                      .++.
T Consensus        94 ~~a~   97 (103)
T d1x4ba1          94 KRAV   97 (103)
T ss_dssp             ECCS
T ss_pred             EECc
Confidence            8754

>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=99.38  E-value=1.6e-13  Score=124.47  Aligned_cols=80  Identities=19%  Similarity=0.209  Sum_probs=66.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ...+++|||+|||+++|+++|+++|++||.+..+       .+....++.++|||||+|.+.++|.+||. |||..|.|+
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            4556899999999999999999999999853221       22333457789999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      ++.|.+..
T Consensus        88 ~~~v~~~~   95 (101)
T d1x5oa1          88 PGVSAPTE   95 (101)
T ss_dssp             TTSCCCSS
T ss_pred             CCccCCCC
Confidence            99986543

>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=99.38  E-value=1.1e-13  Score=125.57  Aligned_cols=75  Identities=9%  Similarity=0.165  Sum_probs=68.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      .+|||+|||..+++++|+++|+.||.|..+.+..+ ++.++|||||+|.+.++|.+|+..|||..|.|+++.|.++
T Consensus        19 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          19 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            38999999999999999999999999999988776 4567999999999999999999999999999998877544

>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=99.38  E-value=4.4e-13  Score=121.42  Aligned_cols=79  Identities=30%  Similarity=0.406  Sum_probs=69.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ++++|||+|||..+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
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 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGP------PIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKIL   90 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSS------CCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeE------EeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEE
Confidence            46799999999999999999999999975542      244556778999999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.+++
T Consensus        91 ~V~~ak   96 (102)
T d2cpxa1          91 VIEFGK   96 (102)
T ss_dssp             EEEECC
T ss_pred             EEEeCC
Confidence            998654

>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=4.2e-13  Score=120.45  Aligned_cols=77  Identities=29%  Similarity=0.478  Sum_probs=69.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhC------CCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLN------GLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~Ln------G~~~~gr~L~V~  623 (943)
                      +|||+|||+.+++++|+++|++||.|..+.+..+  .+.++|||||+|.+.++|.+|+..||      |..|.|+.|.|.
T Consensus        10 tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~   89 (98)
T d1x4ha1          10 TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVD   89 (98)
T ss_dssp             CEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEE
T ss_pred             EEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEE
Confidence            8999999999999999999999999999988776  34578999999999999999999987      667899999999


Q ss_pred             EcccC
Q 002280          624 QAVLD  628 (943)
Q Consensus       624 ~A~~~  628 (943)
                      +|.+.
T Consensus        90 ~a~~k   94 (98)
T d1x4ha1          90 LAVTR   94 (98)
T ss_dssp             CCCCC
T ss_pred             ECCCC
Confidence            88664

>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=4.3e-13  Score=123.23  Aligned_cols=75  Identities=19%  Similarity=0.142  Sum_probs=69.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      .+|||+|||+.+++++|+++|+.||.|..|.|..    .+|||||+|.+.++|.+|+..|||..|.|++|.|.+|....
T Consensus        11 ~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~----~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~   85 (111)
T d1whxa_          11 TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CEEEEECCCCCCCHHHHHhhhhccCCccEEEeec----cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCc
Confidence            3899999999999999999999999999998743    58999999999999999999999999999999999985543

>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=99.38  E-value=1.4e-13  Score=119.71  Aligned_cols=76  Identities=16%  Similarity=0.268  Sum_probs=64.2

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      .+|||+|||+.+|+++|+++|++||.+..+      ..+.+...+.++|||||+|.+.++|..|+. |||..|.|++|+|
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 TNLIVNYLPQNMTQEEFRSLFGSIGEIESC------KLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKV   76 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccc------cceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            479999999999999999999999853321      123344557889999999999999999998 9999999999999


Q ss_pred             cCC
Q 002280          543 KRP  545 (943)
Q Consensus       543 ~rp  545 (943)
                      .++
T Consensus        77 ~~A   79 (82)
T d1fxla1          77 SYA   79 (82)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            754

>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=99.37  E-value=2.2e-13  Score=118.26  Aligned_cols=75  Identities=17%  Similarity=0.252  Sum_probs=59.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      +||||+|||+++|+++|+++|++||.+..+      ..+.+...+.++|||||+|.+.++|..|+. |||..|.|++|.|
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 CTLWMTNFPPSYTQRNIRDLLQDINVVALS------IRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVT   75 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCE------EECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEee------eeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            589999999999999999999999864321      123445668899999999999999999998 9999999999998


Q ss_pred             cC
Q 002280          543 KR  544 (943)
Q Consensus       543 ~r  544 (943)
                      ..
T Consensus        76 ~~   77 (81)
T d2ghpa1          76 KV   77 (81)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.37  E-value=4.1e-13  Score=119.82  Aligned_cols=80  Identities=23%  Similarity=0.311  Sum_probs=64.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....++|||+|||+.+|+++|+++|.+||.+..+.      .+  ...+.++|||||+|.+.++|..|+. |||..|.|+
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~------~~--~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~   79 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVE------II--FNERGSKGFGFVTFENSADADRAREKLHGTVVEGR   79 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEE------EE--CCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhhcceeeecc------cc--ccccCCcceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            44577999999999999999999999998532211      11  1124468999999999999999998 999999999


Q ss_pred             cccccCCcc
Q 002280          539 ILKIKRPKE  547 (943)
Q Consensus       539 ~LkV~rp~d  547 (943)
                      .|+|.+++.
T Consensus        80 ~l~V~~A~~   88 (93)
T d2cq3a1          80 KIEVNNATA   88 (93)
T ss_dssp             ECEEEECCS
T ss_pred             EEEEEecCc
Confidence            999986543

>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=99.37  E-value=5.1e-13  Score=122.36  Aligned_cols=74  Identities=14%  Similarity=0.292  Sum_probs=68.6

Q ss_pred             EEEEecCCC-CCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISR-TLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~-~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||+ .+++++|+++|+.||.|..|.|+++   .+|||||+|.+.++|.+|+..|||..|.|+.|.|.++...
T Consensus         4 ~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           4 VLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN---KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             EEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCT---TSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             EEEEeCCCcccCCHHHHHHHHhhccccceEEEEec---ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            799999965 6999999999999999999999887   5899999999999999999999999999999999987543

>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=99.37  E-value=5.9e-13  Score=116.81  Aligned_cols=73  Identities=12%  Similarity=0.122  Sum_probs=68.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+|+++|+++|+.||+|..|.|..+ ++.++|||||+|.+.++|.+||+ ++|..|.|+.|.|.++
T Consensus         8 tvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2           8 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   81 (85)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEG
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEc
Confidence            8999999999999999999999999999999876 45678999999999999999996 8999999999999875

>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=99.37  E-value=2.7e-13  Score=119.23  Aligned_cols=74  Identities=23%  Similarity=0.342  Sum_probs=66.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|++||            .|.++.+..++|||||+|.+.++|..|+. |||..|.|+.|
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G------------~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l   74 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYG------------KAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQL   74 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTC------------CCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhC------------CceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            346899999999999999999999988            45667777889999999999999999999 99999999999


Q ss_pred             cccCCcc
Q 002280          541 KIKRPKE  547 (943)
Q Consensus       541 kV~rp~d  547 (943)
                      +|.++..
T Consensus        75 ~V~~A~~   81 (86)
T d2cpja1          75 RVRFACH   81 (86)
T ss_dssp             EEEESSC
T ss_pred             EEEECCC
Confidence            9986553

>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=4.8e-13  Score=120.86  Aligned_cols=79  Identities=18%  Similarity=0.263  Sum_probs=69.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeE--------EEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKA--------YHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~--------v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      .+|||+|||..+++++|+++|+.||.|..        +.+..+  ++..+|||||+|.+.++|.+|+..|||..|.|+.|
T Consensus         9 ~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i   88 (101)
T d2cpea1           9 SAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKL   88 (101)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEEE
Confidence            39999999999999999999999999853        444444  34568999999999999999999999999999999


Q ss_pred             EEEEcccCC
Q 002280          621 TAVQAVLDG  629 (943)
Q Consensus       621 ~V~~A~~~~  629 (943)
                      .|.+|.+..
T Consensus        89 ~V~~a~~~~   97 (101)
T d2cpea1          89 KVSLARKKP   97 (101)
T ss_dssp             EEECSSCCC
T ss_pred             EEEEcCCCC
Confidence            999986643

>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=99.36  E-value=1.4e-13  Score=125.39  Aligned_cols=79  Identities=24%  Similarity=0.375  Sum_probs=66.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..|.|++|
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 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSF------RLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL   80 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEE------EEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCB
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhcccccccc------ccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            45789999999999999999999999864332      133444567889999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|.++.
T Consensus        81 ~V~~a~   86 (104)
T d1p1ta_          81 RVDNAA   86 (104)
T ss_dssp             EEEETT
T ss_pred             EEEECC
Confidence            997543

>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=99.36  E-value=1.1e-13  Score=122.75  Aligned_cols=80  Identities=26%  Similarity=0.339  Sum_probs=67.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ....+|||+|||..+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||+ |||..|.|+.
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 DDNATIRVTNLSEDTRETDLQELFRPFGSISRI------YLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLI   79 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEE------EEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccc------cccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEE
Confidence            345789999999999999999999999864322      133444567889999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|.+++
T Consensus        80 i~v~~ak   86 (90)
T d2cq0a1          80 LNVEWAK   86 (90)
T ss_dssp             CEEEESS
T ss_pred             EEEEeee
Confidence            9998644

>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=99.35  E-value=7e-13  Score=118.56  Aligned_cols=81  Identities=21%  Similarity=0.338  Sum_probs=66.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceee-eeeecCCCeeeEEeCCHHHHHHHHH-c-cCCcccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIG-CVIQREKGQAFVEFLTAEDASAALC-C-DGCSFSG  537 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~-~~~~~skGyAFVeF~s~edA~~Al~-L-nG~~l~G  537 (943)
                      ..+++|||+|||+.+|+++|+++|.+||.+..+.      .+.+ ..+|.++|||||+|.+.++|..||. | ||..|.|
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            3567899999999999999999999998643321      1222 2367899999999999999999998 7 8999999


Q ss_pred             ccccccCCcc
Q 002280          538 SILKIKRPKE  547 (943)
Q Consensus       538 r~LkV~rp~d  547 (943)
                      ++|.|.++..
T Consensus        80 r~l~V~~A~~   89 (94)
T d2cpha1          80 RRLVLEWADS   89 (94)
T ss_dssp             CBCEEEECCC
T ss_pred             EEEEEEEcCC
Confidence            9999987653

>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=99.35  E-value=2e-13  Score=116.98  Aligned_cols=74  Identities=16%  Similarity=0.196  Sum_probs=63.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||||||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|.+||++++..|.|+.|.|..
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 KIFVGGLSPDTPEEKIREYFGGFGEVESI------ELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEE------ECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEEC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccc------cccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEE
Confidence            69999999999999999999999864322      133455678899999999999999999999888899999998864

>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=99.35  E-value=7.7e-13  Score=115.42  Aligned_cols=72  Identities=19%  Similarity=0.330  Sum_probs=67.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc-CCeEEEEEEcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-GGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~-~gr~L~V~~A~  626 (943)
                      +|||+|||..+++++|.++|+.||.|..|+++++   .+|||||+|.+.++|..|+..|||..| +|+.|.|.||.
T Consensus        10 tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1          10 ILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN---RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT---TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             EEEEECCCCCCCHHHHHhhhccCccEEEeeeecc---cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            8999999999999999999999999999998765   579999999999999999999999988 56899999874

>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=99.35  E-value=5.5e-13  Score=115.30  Aligned_cols=73  Identities=21%  Similarity=0.224  Sum_probs=65.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ++..++|||+|||  +|+++|+++|++||            .|.++.+...+|||||+|.+.++|..|+. |||..|.|+
T Consensus         2 p~~~~ti~V~~~~--~te~~L~~~F~~~G------------~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~   67 (79)
T d2bz2a1           2 PRKGNTLYVYGED--MTPTLLRGAFSPFG------------NIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESV   67 (79)
T ss_dssp             CCCCCEEEEECSS--CCHHHHHHHHSTTC------------CCSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSC
T ss_pred             CCCCCEEEEECCC--CCHHHHHHHHhccC------------ccceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCE
Confidence            3567899999996  89999999999998            45667778889999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|.+.+
T Consensus        68 ~l~V~~a~   75 (79)
T d2bz2a1          68 QLKVNIAR   75 (79)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEEec
Confidence            99998654

>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=99.35  E-value=1.8e-13  Score=116.00  Aligned_cols=69  Identities=13%  Similarity=0.315  Sum_probs=64.1

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEE
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLT  621 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~  621 (943)
                      |||+|||..+++++|+++|++||+|..+.+..+  ++.++|+|||+|.+.++|.+|+..|||..|.|+.|+
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            799999999999999999999999999998877  456799999999999999999999999999998763

>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=99.35  E-value=3.2e-13  Score=122.91  Aligned_cols=78  Identities=14%  Similarity=0.221  Sum_probs=64.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||+ +|+ .|.|++
T Consensus         8 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v------~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~   80 (103)
T d2cqda1           8 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEA------VVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRK   80 (103)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEE------EESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEE
T ss_pred             CCCcEEEEeCCCCcCcHHHHHHHHhhcccccce------eccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEE
Confidence            345789999999999999999999999864332      133455678899999999999999999999 765 799999


Q ss_pred             ccccCC
Q 002280          540 LKIKRP  545 (943)
Q Consensus       540 LkV~rp  545 (943)
                      |.|...
T Consensus        81 l~V~~a   86 (103)
T d2cqda1          81 ANVNLA   86 (103)
T ss_dssp             CEEEES
T ss_pred             EEEEEc
Confidence            998743

>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=99.35  E-value=1.2e-13  Score=122.88  Aligned_cols=75  Identities=16%  Similarity=0.189  Sum_probs=68.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||.|..+.|+.+ ++.++|||||+|.+.++|.+||+ |||..|+|+.|.|.+|..
T Consensus        15 ~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~ak~   90 (91)
T d1fjeb1          15 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   90 (91)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECCCC
T ss_pred             EEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEecCC
Confidence            8999999999999999999999999988877554 57789999999999999999996 999999999999998753

>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=9.1e-13  Score=118.13  Aligned_cols=79  Identities=18%  Similarity=0.227  Sum_probs=69.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCC-eeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHhCC--CccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGP-LKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGLNG--LKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~-I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~LnG--~~~~gr~L~V~~A  625 (943)
                      +|||+|||..+++++|+++|+.||+ |..+.|+.+   ++.++|||||+|.+.++|..|+..|++  ..++|+.|.|.+|
T Consensus         3 rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A   82 (96)
T d2disa1           3 RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWA   82 (96)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEES
T ss_pred             EEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEc
Confidence            6999999999999999999999996 889998876   356799999999999999999999964  5568999999999


Q ss_pred             ccCCC
Q 002280          626 VLDGS  630 (943)
Q Consensus       626 ~~~~~  630 (943)
                      .|...
T Consensus        83 ~p~~~   87 (96)
T d2disa1          83 EPEID   87 (96)
T ss_dssp             CSSCS
T ss_pred             CCCCC
Confidence            77443

>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=99.35  E-value=9.5e-13  Score=117.82  Aligned_cols=78  Identities=24%  Similarity=0.289  Sum_probs=65.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      ...++|||+|||+.+|+++|+++|.+||.+..         +.-.....+++||||+|.+.++|..||. |||..|.|++
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~---------~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~   82 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRD---------IDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYR   82 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEE---------EEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEE---------EEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            45678999999999999999999999885321         1112335678999999999999999998 9999999999


Q ss_pred             ccccCCcc
Q 002280          540 LKIKRPKE  547 (943)
Q Consensus       540 LkV~rp~d  547 (943)
                      |+|..++.
T Consensus        83 l~V~~a~~   90 (95)
T d1x4aa1          83 LRVEFPRS   90 (95)
T ss_dssp             CEEECCCC
T ss_pred             EEEEeccC
Confidence            99987653

>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=99.35  E-value=4.1e-13  Score=118.85  Aligned_cols=72  Identities=24%  Similarity=0.385  Sum_probs=65.7

Q ss_pred             EEEEecCCCCCCHHHH---HHHHhhcCCeeEEEEEecCC-----CCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEE
Q 002280          552 AIFIGGISRTLSSKMV---MEIVCAFGPLKAYHFEVNED-----HEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAV  623 (943)
Q Consensus       552 ~LfV~NLp~~~teedL---~e~Fs~fG~I~~v~l~~d~~-----~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~  623 (943)
                      +|||+|||+.+++++|   .++|++||.|..|.|+++..     ...|||||+|.+.++|.+|+..|||..|.|+.|+|.
T Consensus        10 ~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          10 LVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             CEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             EEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            7999999999999999   67899999999999988742     235899999999999999999999999999999984

>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=99.34  E-value=2.6e-13  Score=122.95  Aligned_cols=78  Identities=15%  Similarity=0.261  Sum_probs=72.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|+++|++||.|..+.+..+  ++.++|||||+|.+.++|..|+..|||..|.|+.|.|.+|.+..
T Consensus        20 tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak~k~   99 (102)
T d2cpxa1          20 VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNKK   99 (102)
T ss_dssp             EEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCCCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCCCcc
Confidence            8999999999999999999999999988877665  56789999999999999999999999999999999999997644

>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=99.34  E-value=2.4e-13  Score=119.83  Aligned_cols=71  Identities=11%  Similarity=0.085  Sum_probs=65.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|++||.|..+.+..     .|||||+|.+.++|.+||..|||..|.|+.|.|.++.+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~   72 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR-----DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRV   72 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT-----TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhcccccccccc-----cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEec
Confidence            699999999999999999999999999998864     48999999999999999999999999999998876643

>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=99.34  E-value=8e-13  Score=114.24  Aligned_cols=71  Identities=21%  Similarity=0.381  Sum_probs=66.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+||+  +|+++|+++|++||.|..|.+.+    .+|||||+|.+.++|..|+..|||..|.|+.|.|.+|.+.
T Consensus         7 ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   77 (79)
T d2bz2a1           7 TLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP----PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   77 (79)
T ss_dssp             EEEEECSS--CCHHHHHHHHSTTCCCSCEEEET----TTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCSS
T ss_pred             EEEEECCC--CCHHHHHHHHhccCccceeeecc----CCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            89999996  89999999999999999999875    4789999999999999999999999999999999999653

>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=99.34  E-value=1.4e-12  Score=111.57  Aligned_cols=71  Identities=18%  Similarity=0.299  Sum_probs=63.8

Q ss_pred             EEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          553 IFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       553 LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      |||+|||+.+++++|+++|++|| +..+.+    +.++|+|||+|.+.++|.+|+..|||..+.|++|.|.++...
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-LKYCFV----DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee----cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999 545544    347899999999999999999999999999999999998543

>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=99.34  E-value=3.6e-13  Score=119.56  Aligned_cols=81  Identities=22%  Similarity=0.233  Sum_probs=66.5

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      .....+|||+|||+++|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||+ ++..|.|+.
T Consensus         5 ~~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v------~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~~~l~Gr~   77 (90)
T d2cqga1           5 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMV------QVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRW   77 (90)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEE------EEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEE
T ss_pred             CcCCCeEEEECCCCCCCHHHHHHHHHhhccccee------eeccCCCCcccCCEEEEEECCHHHHHHHHh-cCCccCCEE
Confidence            3456799999999999999999999999864332      244556678999999999999999999999 233789999


Q ss_pred             ccccCCcc
Q 002280          540 LKIKRPKE  547 (943)
Q Consensus       540 LkV~rp~d  547 (943)
                      |.|..+..
T Consensus        78 i~v~~a~~   85 (90)
T d2cqga1          78 CDCKLPNS   85 (90)
T ss_dssp             EEEECCCT
T ss_pred             eEEEeCCC
Confidence            99986543

>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=99.34  E-value=6.2e-13  Score=119.33  Aligned_cols=80  Identities=28%  Similarity=0.345  Sum_probs=65.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-cc------CC
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CD------GC  533 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-Ln------G~  533 (943)
                      ...++|||+|||+.+|+++|+++|++||.+..+      ..+.+...+.++|||||+|.+.++|..||. ||      |.
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~------~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~   79 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYV------RVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGL   79 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEE------ECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCE
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceee------eeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCc
Confidence            456899999999999999999999999853221      133444567789999999999999999998 76      56


Q ss_pred             ccccccccccCCc
Q 002280          534 SFSGSILKIKRPK  546 (943)
Q Consensus       534 ~l~Gr~LkV~rp~  546 (943)
                      .|.|++|+|.++.
T Consensus        80 ~~~gr~l~v~~a~   92 (98)
T d1x4ha1          80 KLDGRQLKVDLAV   92 (98)
T ss_dssp             ESSSCEEEEECCC
T ss_pred             EECCEEEEEEECC
Confidence            7889999998654

>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=99.33  E-value=2.9e-13  Score=118.63  Aligned_cols=77  Identities=21%  Similarity=0.246  Sum_probs=64.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccc--c
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSG--S  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~G--r  538 (943)
                      ..++|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..||. |||..+.|  +
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 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQK------NILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQ   78 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeee------eeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCe
Confidence            35679999999999999999999998864332      133444568889999999999999999999 99998876  8


Q ss_pred             cccccC
Q 002280          539 ILKIKR  544 (943)
Q Consensus       539 ~LkV~r  544 (943)
                      +|+|.+
T Consensus        79 ~l~V~~   84 (85)
T d1b7fa2          79 PLSVRL   84 (85)
T ss_dssp             CCEEEE
T ss_pred             EEEEEE
Confidence            898864

>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=99.33  E-value=8.3e-13  Score=116.42  Aligned_cols=76  Identities=21%  Similarity=0.215  Sum_probs=63.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc-ccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-SGS  538 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l-~Gr  538 (943)
                      +++++|||+|||+.+|+++|+++|..||.+..          .....+.++|||||+|.+.++|..|+. |+|..| .|+
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            45789999999999999999999999984211          223456779999999999999999998 999887 589


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|...+
T Consensus        78 ~l~v~~sk   85 (88)
T d2adca2          78 HLRVSFSK   85 (88)
T ss_dssp             BCEEEECS
T ss_pred             EEEEEeCC
Confidence            99998654

>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=99.33  E-value=7.8e-13  Score=119.20  Aligned_cols=71  Identities=27%  Similarity=0.440  Sum_probs=65.9

Q ss_pred             EEEEecCC-CCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGIS-RTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp-~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+||| ..+++++|+++|++||.|..|.|      .+|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+.
T Consensus        17 ~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          17 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             CEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSC
T ss_pred             EEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            89999997 57888999999999999999988      4789999999999999999999999999999999998653

>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=99.33  E-value=3.7e-13  Score=118.89  Aligned_cols=72  Identities=28%  Similarity=0.430  Sum_probs=63.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+.+|+++|+++|.+||.             ..+.++.++|||||+|.+.++|..|+. |||+.|.|++|
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G~-------------~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l   70 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYDL-------------KYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDL   70 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSCC-------------CCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcCc-------------eeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3578999999999999999999988872             234567889999999999999999998 99999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      .|...+
T Consensus        71 ~V~~a~   76 (88)
T d1wg1a_          71 IVQLQP   76 (88)
T ss_dssp             EEEECC
T ss_pred             EEEEcC
Confidence            998543

>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=99.33  E-value=5.7e-13  Score=117.83  Aligned_cols=76  Identities=25%  Similarity=0.265  Sum_probs=62.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      ..+|||+|||+.+|+++|+++|.+||.+..+.      .+.  ..+.++|||||+|.+.++|..||. |||..|.|+.|.
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 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCK------VVC--DENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF   79 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEE------ECC--BTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEE------EEe--ecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            35799999999999999999999998532211      111  124478999999999999999998 999999999999


Q ss_pred             ccCCc
Q 002280          542 IKRPK  546 (943)
Q Consensus       542 V~rp~  546 (943)
                      |.++.
T Consensus        80 V~~a~   84 (89)
T d1cvja2          80 VGRFK   84 (89)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            98654

>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=99.33  E-value=5.6e-13  Score=119.59  Aligned_cols=76  Identities=12%  Similarity=0.222  Sum_probs=69.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||..+++++|+++|++||.|..+.   ..+.++|||||+|.+.++|.+|+..|||..|.|++|.|.+|.+...
T Consensus        18 ~l~V~nL~~~~te~~l~~~F~~~g~v~~~~---~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k~~   93 (96)
T d1fjca_          18 TLLAKNLSFNITEDELKEVFEDALEIRLVS---QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             EEEEESCCSSCCHHHHHHHHCSEEEECCEE---ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcccceeee---ecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCCCC
Confidence            899999999999999999999999886654   3556799999999999999999999999999999999999977554

>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=99.33  E-value=4e-13  Score=117.86  Aligned_cols=75  Identities=21%  Similarity=0.284  Sum_probs=61.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc--
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI--  539 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~--  539 (943)
                      ..+|||+|||+.+|+++|+++|++||.+..+      ..+.+..++.++|||||+|.+.++|..|++ |||..+.|+.  
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 DANLYVSGLPKTMTQKELEQLFSQYGRIITS------RILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEP   79 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEE------EEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcccc------ccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEE
Confidence            4689999999999999999999999863322      133344567889999999999999999998 9999998854  


Q ss_pred             cccc
Q 002280          540 LKIK  543 (943)
Q Consensus       540 LkV~  543 (943)
                      |.|.
T Consensus        80 i~V~   83 (85)
T d1fxla2          80 ITVK   83 (85)
T ss_dssp             CEEE
T ss_pred             EEEE
Confidence            6664

>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=99.33  E-value=3e-13  Score=121.41  Aligned_cols=76  Identities=25%  Similarity=0.344  Sum_probs=65.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      .+..++|||+|||+.+|+++|+++|++||.+.           ....++.++|||||+|.+.++|..|+. |||..|.|+
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            35568999999999999999999999988421           112457789999999999999999998 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|.+..
T Consensus        82 ~i~V~~a~   89 (96)
T d1fjca_          82 SVSLYYTG   89 (96)
T ss_dssp             EEEEEECS
T ss_pred             EEEEEEeC
Confidence            99998644

>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=99.32  E-value=9.3e-13  Score=115.28  Aligned_cols=75  Identities=23%  Similarity=0.271  Sum_probs=61.5

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee---ecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI---QREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~---~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      |||+|||+++|+++|+++|++||.+..+.      .+.+..+   +.++|||||+|.+.++|..|+. |||..|.|++|.
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            89999999999999999999998643321      2222222   3468999999999999999998 999999999999


Q ss_pred             ccCCc
Q 002280          542 IKRPK  546 (943)
Q Consensus       542 V~rp~  546 (943)
                      |.+..
T Consensus        75 V~~a~   79 (85)
T d2cpfa1          75 VRISE   79 (85)
T ss_dssp             EECSS
T ss_pred             EEECC
Confidence            98653

>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=99.32  E-value=1.5e-12  Score=113.46  Aligned_cols=75  Identities=28%  Similarity=0.313  Sum_probs=62.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeee-ecCCCeeeEEeCCHHHHHHHHH-ccCCcc-c
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVI-QREKGQAFVEFLTAEDASAALC-CDGCSF-S  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~-~~skGyAFVeF~s~edA~~Al~-LnG~~l-~  536 (943)
                      .+++++|||+|||..+|+++|.++|++||.            |..+.+ ...+|||||+|.+.++|..|+. |+|..| .
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            456789999999999999999999999883            444433 2357899999999999999999 999888 5


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|+|.+++
T Consensus        73 ~~~i~v~~ak   82 (83)
T d2b0ga1          73 THAMKITFAK   82 (83)
T ss_dssp             TCBCEEEECC
T ss_pred             CcEEEEEEec
Confidence            6889887653

>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=99.32  E-value=1.7e-12  Score=114.56  Aligned_cols=73  Identities=15%  Similarity=0.247  Sum_probs=64.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|++|| +..+.+.    ..+|||||+|.+.++|.+|+..|||..|.|+.|.|.++.+..
T Consensus         7 ~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~----~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~~   79 (88)
T d1wg1a_           7 GILVKNLPQDSNCQEVHDLLKDYD-LKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             CEEEESCCSSCCHHHHHHHTCSSC-CCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             EEEEeCCCCccChHHHHHHHHhcC-ceeeeee----ccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            799999999999999999999999 3334432    368999999999999999999999999999999999985543

>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=99.32  E-value=8.9e-13  Score=112.87  Aligned_cols=68  Identities=22%  Similarity=0.414  Sum_probs=61.6

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccccC
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKIKR  544 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV~r  544 (943)
                      |||+|||+++|+++|+++|.+||             +..+.++.++|||||+|.+.++|..|+. |||..+.|++|+|..
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-------------~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~   67 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-------------LKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQL   67 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-------------EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-------------ccceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEE
Confidence            79999999999999999998876             2456678899999999999999999998 999999999999986


Q ss_pred             Cc
Q 002280          545 PK  546 (943)
Q Consensus       545 p~  546 (943)
                      .+
T Consensus        68 a~   69 (75)
T d1wi6a1          68 QP   69 (75)
T ss_dssp             CC
T ss_pred             eC
Confidence            44

>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=99.31  E-value=3.8e-13  Score=118.23  Aligned_cols=80  Identities=18%  Similarity=0.147  Sum_probs=63.0

Q ss_pred             CCCeEEEcCCCCCCC-HHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          462 PMRRLCVENLPLSAS-EKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vT-EedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ..++|||+|||+++| +++|+++|++||.+..+..     +..+...+.++|||||+|.+.++|..||+|||..|.|+.|
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            468999999999986 5669999999996433211     1223456789999999999999999999999999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|...+
T Consensus        78 ~V~~a~   83 (86)
T d2ghpa3          78 SVSLAD   83 (86)
T ss_dssp             EEEECC
T ss_pred             EEEEcC
Confidence            998543

>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=99.31  E-value=1.9e-12  Score=117.65  Aligned_cols=78  Identities=14%  Similarity=0.220  Sum_probs=67.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec---CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN---EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d---~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||+.+++++|+++|+.|| +..+.++.+   ++.++|||||+|.+.++|.+|+ .|||..|.|+.|.|.+|.+
T Consensus        16 ~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a~~   93 (104)
T d1wi8a_          16 YTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECCC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEECCC
Confidence            4999999999999999999999999 667766655   3457899999999999998666 5999999999999999876


Q ss_pred             CCC
Q 002280          628 DGS  630 (943)
Q Consensus       628 ~~~  630 (943)
                      ...
T Consensus        94 ~~~   96 (104)
T d1wi8a_          94 AQD   96 (104)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=99.31  E-value=2.4e-12  Score=113.36  Aligned_cols=74  Identities=11%  Similarity=0.086  Sum_probs=66.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc-CCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV-GGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~-~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+++|++||.|..+.+..  +.++|+|||+|.+.++|.+|+..|||..+ .|+.|.|.++.+
T Consensus        12 tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~--~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2          12 TLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFF--QKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCCEEEEEEC--SSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             EEEEECCCCCCCHHHHHHHhhccCCEEEEEEee--ecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            899999999999999999999999998776544  34689999999999999999999999988 589999998854

>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=99.31  E-value=1.5e-12  Score=115.48  Aligned_cols=78  Identities=26%  Similarity=0.382  Sum_probs=61.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeee---eecCCCeeeEEeCCHHHHHHHHH-ccCCccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV---IQREKGQAFVEFLTAEDASAALC-CDGCSFS  536 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~---~~~skGyAFVeF~s~edA~~Al~-LnG~~l~  536 (943)
                      +++++|||+|||+.+|+++|++.|..+...+|        .|..+.   ++.++|||||+|.+.++|..|+. |||..|.
T Consensus         1 ~P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G--------~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~   72 (91)
T d1nu4a_           1 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFG--------QILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFY   72 (91)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGS--------CEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhcccc--------cccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEEC
Confidence            35789999999999999999865433222222        333333   36679999999999999999998 9999999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |+.|.|.+++
T Consensus        73 g~~l~v~~ak   82 (91)
T d1nu4a_          73 DKPMRIQYAK   82 (91)
T ss_dssp             TEECEEEECS
T ss_pred             CEEEEEEEeC
Confidence            9999998654

>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=99.30  E-value=7.8e-13  Score=120.25  Aligned_cols=80  Identities=24%  Similarity=0.364  Sum_probs=64.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      .++++|||+|||+.+|+++|+++|+.||. ..   +.  ..+....++.++|||||+|.+.++|++|+.||+..|.|+.|
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-SA---VR--LPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRI   86 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSCE-EE---EE--CCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhcc-cc---ce--eeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEE
Confidence            34689999999999999999999998872 21   11  01222346778999999999999999888899999999999


Q ss_pred             cccCCc
Q 002280          541 KIKRPK  546 (943)
Q Consensus       541 kV~rp~  546 (943)
                      +|..+.
T Consensus        87 ~V~~a~   92 (104)
T d1wi8a_          87 RVDVAD   92 (104)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            997543

>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=1.1e-12  Score=115.40  Aligned_cols=68  Identities=24%  Similarity=0.253  Sum_probs=59.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~LkV  542 (943)
                      ++|||+|||+.+|+++|+++|++||            .|..+.+. ..|||||+|.+.++|..||. |||..|.|+.|+|
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 NRVVVSGLPPSGSWQDLKDHMREAG------------DVCYADVY-RDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGET   67 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGS------------CEEEEEEC-TTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCC
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhc------------cccccccc-ccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEE
Confidence            4799999999999999999999988            34455443 36999999999999999998 9999999999988


Q ss_pred             cC
Q 002280          543 KR  544 (943)
Q Consensus       543 ~r  544 (943)
                      ..
T Consensus        68 ~~   69 (87)
T d3begb1          68 AY   69 (87)
T ss_dssp             CB
T ss_pred             eE
Confidence            74

>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=99.30  E-value=1.2e-12  Score=116.17  Aligned_cols=76  Identities=14%  Similarity=0.236  Sum_probs=68.0

Q ss_pred             EEEEecCCCCCCHHHHH----HHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVM----EIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~----e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||..+++++|+    ++|++||.|..|.+... +.++|||||+|.+.++|.+|+..|||..|.|+.|.|.+|.+
T Consensus         5 tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~-~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak~   83 (91)
T d1nu4a_           5 TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKT   83 (91)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee-ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            89999999999999886    46899999999887542 44689999999999999999999999999999999999865


Q ss_pred             C
Q 002280          628 D  628 (943)
Q Consensus       628 ~  628 (943)
                      .
T Consensus        84 ~   84 (91)
T d1nu4a_          84 D   84 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=9.5e-13  Score=116.16  Aligned_cols=74  Identities=14%  Similarity=0.275  Sum_probs=66.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDGS  630 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~~  630 (943)
                      +|||+|||+.+++++|+++|++||.|..|++..   .++|||||+|.+.++|.+|+.  ++..|.|++|.|.+|.+...
T Consensus         7 ~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~---~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k~~   80 (88)
T d1wf0a_           7 GVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK---PFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             EEEEESCCSSSCHHHHHHHSTTTSCCCEEECCS---SCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCCC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHcCCceEEEEee---ccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCCCC
Confidence            899999999999999999999999999987654   378999999999999999984  88899999999999876443

>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=99.29  E-value=2.2e-12  Score=118.15  Aligned_cols=77  Identities=16%  Similarity=0.219  Sum_probs=69.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc--CCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV--GGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~--~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+|+++|+++|++||.|..|.|..+  .++|+|||+|.+.++|..|+..|||..|  .++.|.|.++.+..
T Consensus         9 ~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~--~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~~   86 (108)
T d2adba1           9 RIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTS   86 (108)
T ss_dssp             EEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEE--TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSCS
T ss_pred             EEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEee--CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCcc
Confidence            8999999999999999999999999999998876  3589999999999999999999999988  57899999886644


Q ss_pred             C
Q 002280          630 S  630 (943)
Q Consensus       630 ~  630 (943)
                      .
T Consensus        87 ~   87 (108)
T d2adba1          87 L   87 (108)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.29  E-value=3.1e-12  Score=114.89  Aligned_cols=74  Identities=20%  Similarity=0.338  Sum_probs=67.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCC--eEEEEEEcccC
Q 002280          551 VAIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGG--QVLTAVQAVLD  628 (943)
Q Consensus       551 ~~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~g--r~L~V~~A~~~  628 (943)
                      .+|||+|||..+++++|+++|++||.|..+.+.+    .++||||+|.+.++|.+|+..|||..|.|  ++|.|.+|.+.
T Consensus        18 ~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~----~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~   93 (97)
T d1whya_          18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK----GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG   93 (97)
T ss_dssp             SCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS----SSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCC
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhhcccceEeeec----cccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCC
Confidence            4999999999999999999999999999999865    47899999999999999999999999976  58999998653

>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=99.29  E-value=1.6e-12  Score=114.04  Aligned_cols=74  Identities=14%  Similarity=0.217  Sum_probs=66.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      +|||+|||+.+++++|+++|+.||.+.. +.+..+ ++.++|+|||+|.+.++|.+|+..|||..|+|++|.|..|
T Consensus        11 ~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1          11 IIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             EEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             EEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            7999999999999999999999999876 444444 5667999999999999999999999999999999999754

>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=99.29  E-value=2e-12  Score=114.01  Aligned_cols=75  Identities=21%  Similarity=0.257  Sum_probs=66.4

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c--cCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L--nG~~l~  536 (943)
                      ..++++|||+|||+.+|+++|+++|++||            .|..+.+..+++||||+|.+.++|..|+. +  ++..+.
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            45788999999999999999999999988            56677778889999999999999999997 4  678999


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|+|...+
T Consensus        73 g~~l~v~~sk   82 (88)
T d2cq1a1          73 NQPIYIQYSN   82 (88)
T ss_dssp             TEECEEEECS
T ss_pred             CCEEEEEECC
Confidence            9999998654

>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=99.29  E-value=1.5e-12  Score=111.42  Aligned_cols=73  Identities=16%  Similarity=0.141  Sum_probs=59.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccccccC
Q 002280          465 RLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSILKIKR  544 (943)
Q Consensus       465 tLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~r  544 (943)
                      +|||+|||+++|+++|+++|.+||.+..+       .+. ...+..++||||+|.+.++|.+||.+|+..|.|++|.|.+
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 TVLVKNLPKSYNQNKVYKYFKHCGPIIHV-------DVA-DSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSH   73 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEE-------EEE-ECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEE-------EEE-eeccccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEE
Confidence            79999999999999999999999853321       111 1123456799999999999999999999999999999875


Q ss_pred             C
Q 002280          545 P  545 (943)
Q Consensus       545 p  545 (943)
                      .
T Consensus        74 ~   74 (75)
T d2ghpa2          74 L   74 (75)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.28  E-value=3.1e-12  Score=114.87  Aligned_cols=74  Identities=23%  Similarity=0.282  Sum_probs=64.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc-
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS-  538 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr-  538 (943)
                      .+.++|||+|||+++|+++|+++|++||            .|..+.+..+++||||+|.+.++|..|+. |||..|.|. 
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            3568999999999999999999999988            55667777889999999999999999999 999999774 


Q ss_pred             -cccccCCc
Q 002280          539 -ILKIKRPK  546 (943)
Q Consensus       539 -~LkV~rp~  546 (943)
                       +|+|.+++
T Consensus        83 ~~l~v~~ak   91 (97)
T d1whya_          83 RRLRVDFAK   91 (97)
T ss_dssp             CBCEEEECC
T ss_pred             eEEEEEeCC
Confidence             67776544

>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=99.28  E-value=1.4e-12  Score=114.44  Aligned_cols=76  Identities=20%  Similarity=0.298  Sum_probs=64.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccccc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ...+|||+|||+.+|+++|+++|..|+.+..      ...+....++.++|||||+|.+.++|..||. |||..|.|++|
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~------~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i   81 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPG------SVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKV   81 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTT------TCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhccccee------EEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEE
Confidence            3457999999999999999999999875322      1134555678899999999999999999998 99999999999


Q ss_pred             ccc
Q 002280          541 KIK  543 (943)
Q Consensus       541 kV~  543 (943)
                      +|.
T Consensus        82 ~v~   84 (86)
T d2cqpa1          82 KLV   84 (86)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            885

>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=99.27  E-value=4.1e-13  Score=113.78  Aligned_cols=70  Identities=16%  Similarity=0.256  Sum_probs=59.5

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccccc
Q 002280          466 LCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSILK  541 (943)
Q Consensus       466 LfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~Lk  541 (943)
                      |||+|||+.+|+++|+++|.+||.+..+      ..+.+..++.++|||||+|.+.++|..|+. |||..|.|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~------~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVST------KAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEE------EEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccc------ccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            8999999999999999999999853321      123334567899999999999999999998 999999999875

>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=99.26  E-value=6e-12  Score=114.46  Aligned_cols=75  Identities=21%  Similarity=0.138  Sum_probs=66.3

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c--cCCccc
Q 002280          460 NRPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSFS  536 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L--nG~~l~  536 (943)
                      ..++++|||+|||+.+|+++|.++|..||            .|..+.+.+.++||||+|.+.++|..||. |  +++.+.
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            45678999999999999999999999988            56777788899999999999999999998 6  567889


Q ss_pred             cccccccCCc
Q 002280          537 GSILKIKRPK  546 (943)
Q Consensus       537 Gr~LkV~rp~  546 (943)
                      |++|+|...+
T Consensus        80 g~~l~v~~s~   89 (104)
T d1wexa_          80 GQQAFFNYST   89 (104)
T ss_dssp             SSBCEEEECS
T ss_pred             eEEEEEEEcC
Confidence            9999997543

>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=99.26  E-value=1.5e-12  Score=114.93  Aligned_cols=73  Identities=16%  Similarity=0.170  Sum_probs=62.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeee-eecCCCeeeEEeCCHHHHHHHHHccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCV-IQREKGQAFVEFLTAEDASAALCCDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~-~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~  539 (943)
                      ..+++|||+|||+.+|+++|+++|.+||.            |.++. +..++|||||+|.+.++|+.||. ++..|.|++
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~------------v~~v~~~~~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~   69 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGD------------VMDVFIPKPFRAFAFVTFADDQIAQSLCG-EDLIIKGIS   69 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSC------------CCEEECCSSCCSCCEEECSCHHHHHHTTT-CEEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCC------------ceEEEEeeccCceEEEEECCHHHHHHHHh-CCCEECCEE
Confidence            45789999999999999999999999884            23332 35678999999999999999996 778999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |.|.++.
T Consensus        70 l~v~~a~   76 (88)
T d1wf0a_          70 VHISNAE   76 (88)
T ss_dssp             EEEECCC
T ss_pred             eEEEeCC
Confidence            9998643

>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=99.26  E-value=4.8e-12  Score=113.96  Aligned_cols=71  Identities=27%  Similarity=0.247  Sum_probs=61.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +..++|||+|||+.+|+++|+++|++||.            |..+.+. .+|||||+|.+.++|..||+ |||..|.|+.
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            45678999999999999999999999883            4444443 57999999999999999998 9999999999


Q ss_pred             ccccC
Q 002280          540 LKIKR  544 (943)
Q Consensus       540 LkV~r  544 (943)
                      |+|..
T Consensus        80 i~v~~   84 (98)
T d1wg4a_          80 GETSY   84 (98)
T ss_dssp             SCEEE
T ss_pred             EEEEE
Confidence            98873

>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=99.25  E-value=6.5e-12  Score=114.84  Aligned_cols=72  Identities=21%  Similarity=0.260  Sum_probs=61.6

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHHHHhhhhccCcccccCCcceeeeeee-cCCCeeeEEeCCHHHHHHHHH-ccCCcccccc
Q 002280          463 MRRLCVENLPL-SASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQ-REKGQAFVEFLTAEDASAALC-CDGCSFSGSI  539 (943)
Q Consensus       463 ~rtLfVgNLP~-~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~-~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr~  539 (943)
                      +.+|||+|||+ .+|+++|+++|+.||.            |..+.+. ..+|||||+|.+.++|.+||+ |||..|.|+.
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 5999999999999994            4444432 347999999999999999999 9999999999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|...+
T Consensus        70 l~v~~s~   76 (109)
T d2adca1          70 IRITLSK   76 (109)
T ss_dssp             CEEECCS
T ss_pred             EEEEECC
Confidence            9998754

>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=2e-12  Score=117.62  Aligned_cols=79  Identities=19%  Similarity=0.245  Sum_probs=65.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+++|+++|+++|..||.+...      ..++...++.++|||||+|.+.++|.+||++|+..|.|+.|
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------MTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYI   86 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEE------EECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEE------EEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEE
Confidence            345689999999999999999999888743221      12334456788999999999999999999999999999999


Q ss_pred             cccCC
Q 002280          541 KIKRP  545 (943)
Q Consensus       541 kV~rp  545 (943)
                      .|...
T Consensus        87 ~V~~~   91 (104)
T d1wg5a_          87 EIFKS   91 (104)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            98743

>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=99.24  E-value=1.4e-11  Score=111.98  Aligned_cols=74  Identities=11%  Similarity=0.112  Sum_probs=67.6

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh--CCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L--nG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||..+++++|.++|++||.|..+.+.+    .+|+|||+|.+.++|..|+..|  ++..++|++|.|.++....
T Consensus        17 ~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~----~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~~   92 (104)
T d1wexa_          17 VVHVRGLCESVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKR   92 (104)
T ss_dssp             EEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSS
T ss_pred             EEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe----cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCCc
Confidence            899999999999999999999999999999875    4899999999999999999977  5677899999999986543

>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=99.24  E-value=3.8e-12  Score=115.34  Aligned_cols=76  Identities=12%  Similarity=0.222  Sum_probs=67.2

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+|+++|+++|+.||.+ .|.++.+ .+..+|||||+|.+.++|++|++ ||+..|+|+.|.|.++.+..
T Consensus        17 ~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~~~~   93 (102)
T d1weza_          17 CVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNSTAG   93 (102)
T ss_dssp             EEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECCCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcCCCC
Confidence            89999999999999999999999865 5555555 56679999999999999999986 89999999999999886543

>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=99.24  E-value=6.9e-12  Score=114.01  Aligned_cols=77  Identities=10%  Similarity=0.149  Sum_probs=68.1

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec--CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccCC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN--EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLDG  629 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d--~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~~  629 (943)
                      +|||+|||+.+++++|+++|+.||.|..+.++.+  .+..+|+|||+|.+.++|.+|+. ||+..|+|+.|.|..+.+..
T Consensus        17 ~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~~~~~   95 (104)
T d1wg5a_          17 FVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKSSRAE   95 (104)
T ss_dssp             EEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEECTTT
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEECCHHH
Confidence            8999999999999999999999999887555444  45678999999999999999996 99999999999999886644

>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=99.24  E-value=3.9e-12  Score=114.55  Aligned_cols=72  Identities=11%  Similarity=0.101  Sum_probs=67.4

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||+.+++++|.++|++||.|..+.|..     +|||||+|.+.++|.+||+.|||..|.|+.|.|.++.+.
T Consensus        17 ~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~   88 (98)
T d1wg4a_          17 RVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-----DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVY   88 (98)
T ss_dssp             EEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-----TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhhcccccccccc-----cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecC
Confidence            899999999999999999999999999998853     589999999999999999999999999999999987543

>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=99.23  E-value=1.1e-12  Score=119.01  Aligned_cols=76  Identities=25%  Similarity=0.240  Sum_probs=62.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+++|+++|+++|..|+.+    .+    .+.....+..+|||||+|.+.++|..||+||+..|.|+.|
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~~----~v----~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I   84 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM----RV----HIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYV   84 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS----EE----EEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCcc----ee----eeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEE
Confidence            456799999999999999999999876521    11    2222345778999999999999999999999999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      +|.+
T Consensus        85 ~V~~   88 (102)
T d1weza_          85 ELFL   88 (102)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9874

>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=99.23  E-value=1.1e-11  Score=109.05  Aligned_cols=73  Identities=11%  Similarity=0.105  Sum_probs=66.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh--CCCccCCeEEEEEEcccC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQAVLD  628 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L--nG~~~~gr~L~V~~A~~~  628 (943)
                      +|||+|||..+++++|.++|++||.|..+.+.++    +|+|||+|.+.++|..|+..|  ++..+.|++|.|.++...
T Consensus        10 ~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~----~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~~   84 (88)
T d2cq1a1          10 VLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   84 (88)
T ss_dssp             EEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             EEEEeCCCCCCCHHHHHHHHhccccccccccccc----ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCCC
Confidence            8999999999999999999999999999988764    789999999999999999865  678899999999998553

>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=99.23  E-value=3.4e-12  Score=115.77  Aligned_cols=75  Identities=15%  Similarity=0.144  Sum_probs=67.0

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeE-EEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKA-YHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~-v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+++++|+++|+.||.|.. +.+..+ .+.++|+|||+|.+.++|.+||. |||..|+|+.|.|.++..
T Consensus        10 ~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~~~   86 (103)
T d2cpya1          10 CAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVVTL   86 (103)
T ss_dssp             EEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEECH
T ss_pred             EEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEECCH
Confidence            8999999999999999999999999876 444443 56789999999999999999996 999999999999998754

>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=99.23  E-value=2.9e-12  Score=115.42  Aligned_cols=72  Identities=26%  Similarity=0.492  Sum_probs=61.4

Q ss_pred             CCCCeEEEcCCC-CCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccccc
Q 002280          461 RPMRRLCVENLP-LSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFSGS  538 (943)
Q Consensus       461 ~~~rtLfVgNLP-~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~Gr  538 (943)
                      ....+|||+||| ..+++++|+++|.+||            .|..+.+  ++|||||+|.+.++|..||. |||..|.|+
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G------------~i~~~~i--~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~   78 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYG------------KIVGCSV--HKGFAFVQYVNERNARAAVAGEDGRMIAGQ   78 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSS------------CEEEEEE--ETEEEEEEESSHHHHHHHHHTTTTCEETTE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcC------------CEEEEEE--eCCeEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            345689999997 5678899999999988            4455555  58999999999999999999 999999999


Q ss_pred             cccccCCc
Q 002280          539 ILKIKRPK  546 (943)
Q Consensus       539 ~LkV~rp~  546 (943)
                      +|+|....
T Consensus        79 ~l~V~~a~   86 (98)
T d1wf2a_          79 VLDINLAA   86 (98)
T ss_dssp             ECEEEETT
T ss_pred             EEEEEECC
Confidence            99998543

>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=99.22  E-value=3.3e-12  Score=115.90  Aligned_cols=78  Identities=17%  Similarity=0.228  Sum_probs=64.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|..||.+..      ...+.....|.++|||||+|.+.++|..||.|||..|.|+.|
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~------~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i   79 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDEN------AVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREA   79 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCST------TEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEE------EEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEE
Confidence            34568999999999999999999998875322      112334456889999999999999999999999999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      .|..
T Consensus        80 ~V~~   83 (103)
T d2cpya1          80 FVHV   83 (103)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8864

>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=99.21  E-value=1e-11  Score=111.13  Aligned_cols=78  Identities=18%  Similarity=0.213  Sum_probs=61.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeee-eeecCCCeeeEEeCCHHHHHHHHH-ccC--Ccccccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGC-VIQREKGQAFVEFLTAEDASAALC-CDG--CSFSGSI  539 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~-~~~~skGyAFVeF~s~edA~~Al~-LnG--~~l~Gr~  539 (943)
                      ++|||||||..+|+++|+++|++||..  +..+.   .+.+. ..+.++|||||+|.+.++|..|+. |++  +.+.|++
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~--i~~v~---~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~   76 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEG--VLDVI---VYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQ   76 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTT--EEEEE---CCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBC
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCc--ceEEE---EeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEE
Confidence            589999999999999999999999841  11111   22222 347789999999999999999998 764  6778999


Q ss_pred             ccccCCc
Q 002280          540 LKIKRPK  546 (943)
Q Consensus       540 LkV~rp~  546 (943)
                      |+|.++.
T Consensus        77 i~V~~A~   83 (96)
T d2disa1          77 IAVDWAE   83 (96)
T ss_dssp             CEEEESC
T ss_pred             EEEEEcC
Confidence            9998654

>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=99.20  E-value=4.3e-12  Score=117.03  Aligned_cols=78  Identities=21%  Similarity=0.340  Sum_probs=65.4

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCccccccc
Q 002280          461 RPMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSIL  540 (943)
Q Consensus       461 ~~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~L  540 (943)
                      ....+|||+|||+.+|+++|+++|+.||.+..      ...+.....|.++|||||+|.+.++|.+||.|||..|.|+.|
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            35679999999999999999999988774322      123445556889999999999999999999999999999999


Q ss_pred             cccC
Q 002280          541 KIKR  544 (943)
Q Consensus       541 kV~r  544 (943)
                      .|..
T Consensus        90 ~V~~   93 (112)
T d1wela1          90 QVHP   93 (112)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8863

>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=99.20  E-value=5.5e-12  Score=113.72  Aligned_cols=76  Identities=28%  Similarity=0.357  Sum_probs=66.1

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH---ccCCcc
Q 002280          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC---CDGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~-vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~---LnG~~l  535 (943)
                      ....++|||+|||.. +|+++|.++|+.||            .|.++.+..++|||||+|.+.++|..|+.   ++++.|
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            355789999999985 89999999999998            55667777889999999999999999986   788999


Q ss_pred             ccccccccCCcc
Q 002280          536 SGSILKIKRPKE  547 (943)
Q Consensus       536 ~Gr~LkV~rp~d  547 (943)
                      .|+.|+|..++.
T Consensus        83 ~gr~l~V~~s~~   94 (99)
T d1x4fa1          83 QGRCVKVDLSEK   94 (99)
T ss_dssp             SSSCCEEEEECS
T ss_pred             CCEEEEEEEcCC
Confidence            999999986543

>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=99.20  E-value=1.8e-11  Score=111.25  Aligned_cols=75  Identities=9%  Similarity=0.034  Sum_probs=67.2

Q ss_pred             EEEEecCCCCC-CH----HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          552 AIFIGGISRTL-SS----KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       552 ~LfV~NLp~~~-te----edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +|||+||+..+ ++    ++|.++|++||.|..+.+.+    ++|+|||+|.+.++|.+|+..|||..|.|+.|.|.+|.
T Consensus         7 ~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~   82 (104)
T d1weya_           7 GLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             EEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             eEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec----CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeecc
Confidence            89999999875 33    56999999999999999875    58999999999999999999999999999999999996


Q ss_pred             cCCC
Q 002280          627 LDGS  630 (943)
Q Consensus       627 ~~~~  630 (943)
                      +...
T Consensus        83 ~~~~   86 (104)
T d1weya_          83 TLHI   86 (104)
T ss_dssp             CSSC
T ss_pred             cCCC
Confidence            6443

>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=99.19  E-value=3.1e-12  Score=113.09  Aligned_cols=75  Identities=19%  Similarity=0.223  Sum_probs=58.5

Q ss_pred             CCeEEEcCCCCCCCHHHH---HHHHHhhhhccCcccccCCcceeeeeeec---CCCeeeEEeCCHHHHHHHHH-ccCCcc
Q 002280          463 MRRLCVENLPLSASEKAL---MEFLNNFLLSSGVQHVHGSLPCIGCVIQR---EKGQAFVEFLTAEDASAALC-CDGCSF  535 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL---~elF~~~G~~~g~~~i~~~~~v~~~~~~~---skGyAFVeF~s~edA~~Al~-LnG~~l  535 (943)
                      .++|||+|||+.+|+++|   .++|.+||.+..+.      .+.+..++.   ..|||||+|.+.++|..|+. |||..|
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 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVV------INNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVV   81 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEE------EECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEE------EeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEE
Confidence            468999999999999999   66788888543321      112222333   34899999999999999998 999999


Q ss_pred             cccccccc
Q 002280          536 SGSILKIK  543 (943)
Q Consensus       536 ~Gr~LkV~  543 (943)
                      .|++|+|.
T Consensus        82 ~gr~lkvS   89 (89)
T d2cpia1          82 DGRTLKAS   89 (89)
T ss_dssp             TTEEEEEE
T ss_pred             CCEEEEEC
Confidence            99999873

>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=99.17  E-value=1.6e-11  Score=110.71  Aligned_cols=74  Identities=16%  Similarity=0.195  Sum_probs=67.1

Q ss_pred             EEEEEecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHH--HhCCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIA--GLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~-~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~--~LnG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||.. +|+++|.++|++||.|..+.+.++    +|+|||+|.+.++|..|+.  .+++..|.|+.|.|.+|..
T Consensus        19 ~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~----k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~   94 (99)
T d1x4fa1          19 RVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM----KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK   94 (99)
T ss_dssp             CEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT----TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec----CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCC
Confidence            38999999985 899999999999999999998764    7999999999999999997  5789999999999999855


Q ss_pred             C
Q 002280          628 D  628 (943)
Q Consensus       628 ~  628 (943)
                      .
T Consensus        95 ~   95 (99)
T d1x4fa1          95 Y   95 (99)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.16  E-value=2.6e-11  Score=107.08  Aligned_cols=73  Identities=16%  Similarity=0.078  Sum_probs=66.1

Q ss_pred             EEEEEecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHh--CCCccCCeEEEEEEccc
Q 002280          551 VAIFIGGISRT-LSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGL--NGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       551 ~~LfV~NLp~~-~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~L--nG~~~~gr~L~V~~A~~  627 (943)
                      .+|||+|||.. +|+++|.++|++||.|..|.+..+    +++|||+|.+.++|..|+..|  ++..+.|++|.|.+|..
T Consensus         9 r~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~----k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~~   84 (89)
T d1x4da1           9 RVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             CEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             cEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc----ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCC
Confidence            38999999985 889999999999999999998764    689999999999999999966  68889999999999864

>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=99.15  E-value=8.8e-12  Score=114.08  Aligned_cols=73  Identities=23%  Similarity=0.252  Sum_probs=59.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCccc--cc
Q 002280          462 PMRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSFS--GS  538 (943)
Q Consensus       462 ~~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l~--Gr  538 (943)
                      +..+|||+|||+.+|+++|+++|++||.+..          +.+....++|||||+|.+.++|..||. |||..|.  |+
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            3468999999999999999999999985322          222335678999999999999999999 9998884  66


Q ss_pred             cccccC
Q 002280          539 ILKIKR  544 (943)
Q Consensus       539 ~LkV~r  544 (943)
                      .|+|..
T Consensus        76 ~l~v~~   81 (108)
T d2adba1          76 TLRIDF   81 (108)
T ss_dssp             CCEEEE
T ss_pred             EEEEEe
Confidence            677654

>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=99.15  E-value=1.7e-11  Score=108.25  Aligned_cols=75  Identities=19%  Similarity=0.239  Sum_probs=66.1

Q ss_pred             CCCCCeEEEcCCCCC-CCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-c--cCCcc
Q 002280          460 NRPMRRLCVENLPLS-ASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-C--DGCSF  535 (943)
Q Consensus       460 ~~~~rtLfVgNLP~~-vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-L--nG~~l  535 (943)
                      ...+++|||+|||.. +|+++|.++|++||            .|.++.+..+++||||+|.+.++|..|+. |  ++..+
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 88999999999998            56777777889999999999999999998 5  67899


Q ss_pred             ccccccccCCc
Q 002280          536 SGSILKIKRPK  546 (943)
Q Consensus       536 ~Gr~LkV~rp~  546 (943)
                      .|++|+|...+
T Consensus        73 ~gr~l~V~~s~   83 (89)
T d1x4da1          73 FGKPVRVHLSQ   83 (89)
T ss_dssp             TTEECEEEEEC
T ss_pred             CCceEEEEECC
Confidence            99999998654

>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=99.14  E-value=8.1e-12  Score=113.66  Aligned_cols=68  Identities=21%  Similarity=0.287  Sum_probs=51.8

Q ss_pred             ccccccccCCCCCCCCCC----CCCccCCceEEEEecCHHHHHHHHHHhhcCccCCceEEEEeechhhHHhh
Q 002280          873 GMQSSAVENGDNENQDPN----QGHIFEPGCVFVEYMRAEASCMAAHSLHRRLFDDRIVAVEYIPLNLYRAR  940 (943)
Q Consensus       873 ~~~e~~~~~~~~~~~~~d----~~~i~~~g~v~v~f~~~~~a~~a~~~l~gr~f~~~~v~~~y~~~~~y~~~  940 (943)
                      ||++.+..-|.+....+.    .......|+|||+|.++++|++|+++||||||+||+|.|.|++++.|++.
T Consensus        30 di~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~~y~~~  101 (104)
T d1o0pa_          30 DVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHRR  101 (104)
T ss_dssp             HHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHHHHHHT
T ss_pred             HHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEEcCHHHhhhc
Confidence            344444333554443332    22223469999999999999999999999999999999999999999875

>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=99.13  E-value=7.9e-12  Score=115.22  Aligned_cols=75  Identities=9%  Similarity=0.197  Sum_probs=65.9

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEe--cCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV--NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~--d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~~  627 (943)
                      +|||+|||+.+|+++|.++|+.||.+..+.++.  ..+.++|+|||+|.+.++|.+|+. |||..|+|+.|.|..+.+
T Consensus        20 ~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~~~   96 (112)
T d1wela1          20 CVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITK   96 (112)
T ss_dssp             EEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECH
T ss_pred             EEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEcCh
Confidence            899999999999999999999999886643332  356779999999999999999996 999999999999987754

>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=99.13  E-value=1.4e-12  Score=115.39  Aligned_cols=73  Identities=21%  Similarity=0.337  Sum_probs=63.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEe-------cCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEV-------NEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~-------d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      +|||+|||..+++++|+++|+.||.|..+.+..       ..+.++|||||+|.+.++|.+|++ |||..|.|+.|.|.+
T Consensus         3 rlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~r   81 (90)
T d1u2fa_           3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRR   81 (90)
T ss_dssp             EEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCBC
T ss_pred             EEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEECC
Confidence            799999999999999999999999887655432       234679999999999999999985 999999999999975


Q ss_pred             c
Q 002280          625 A  625 (943)
Q Consensus       625 A  625 (943)
                      +
T Consensus        82 ~   82 (90)
T d1u2fa_          82 P   82 (90)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.08  E-value=6.8e-11  Score=107.45  Aligned_cols=61  Identities=15%  Similarity=0.046  Sum_probs=57.0

Q ss_pred             HHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEE
Q 002280          682 EDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEE  742 (943)
Q Consensus       682 eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~  742 (943)
                      ++|+++|++||.|++|.|+++..+..+|+|||+|.+.++|.+|+..|||++|+++.+.+..
T Consensus        42 d~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~  102 (104)
T d1jmta_          42 EVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAEL  102 (104)
T ss_dssp             HHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEE
T ss_pred             HHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEE
Confidence            5578889999999999999999999999999999999999999999999999999988754

>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=99.08  E-value=1e-11  Score=112.93  Aligned_cols=74  Identities=16%  Similarity=0.191  Sum_probs=67.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEec-CCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVN-EDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d-~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      .++|.+++..+++++|.++|++||.|..|.|+++ ++.++|+|||+|.+.++|.+|+..|||.+|.|++|.|.+.
T Consensus        29 ~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          29 DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             hHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            4667788888999999999999999999999876 5677999999999999999999999999999999999864

>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=99.04  E-value=8.1e-11  Score=106.93  Aligned_cols=74  Identities=12%  Similarity=0.029  Sum_probs=63.1

Q ss_pred             CCCCeEEEcCCCCCC-CH----HHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCc
Q 002280          461 RPMRRLCVENLPLSA-SE----KALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCS  534 (943)
Q Consensus       461 ~~~rtLfVgNLP~~v-TE----edL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~  534 (943)
                      ....+|||+||+..+ ++    ++|.++|++||            .|+++.+.++++||||+|.+.++|..|+. |||..
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            346789999999886 44    45777887777            56777788899999999999999999999 99999


Q ss_pred             cccccccccCCc
Q 002280          535 FSGSILKIKRPK  546 (943)
Q Consensus       535 l~Gr~LkV~rp~  546 (943)
                      |.|++|+|.+..
T Consensus        71 ~~g~~l~v~~a~   82 (104)
T d1weya_          71 FLGKEMKLYFAQ   82 (104)
T ss_dssp             ETTEECEEECCC
T ss_pred             cCCCEeEEeecc
Confidence            999999997543

>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=99.00  E-value=3.3e-10  Score=102.21  Aligned_cols=70  Identities=19%  Similarity=0.188  Sum_probs=59.0

Q ss_pred             CCCCCeEEEc--CCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHH-ccCCcc-
Q 002280          460 NRPMRRLCVE--NLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALC-CDGCSF-  535 (943)
Q Consensus       460 ~~~~rtLfVg--NLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~-LnG~~l-  535 (943)
                      +.+.++|||+  |||+.+|+++|+++|++||            .|..+.+..+++||||+|.+.++|..|+. |||..+ 
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            4567889995  5999999999999999998            55667777889999999999999999999 999876 


Q ss_pred             cccccc
Q 002280          536 SGSILK  541 (943)
Q Consensus       536 ~Gr~Lk  541 (943)
                      .+..+.
T Consensus        83 ~~~~~~   88 (101)
T d2cq2a1          83 DDLGQK   88 (101)
T ss_dssp             CTTSCE
T ss_pred             CCCCcE
Confidence            344443

>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=2.1e-10  Score=105.64  Aligned_cols=70  Identities=10%  Similarity=0.040  Sum_probs=62.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecCh-hHHHHHHHHhCCCccCCeEEEEEEc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQ-LVTPKAIAGLNGLKVGGQVLTAVQA  625 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~-e~A~kAl~~LnG~~~~gr~L~V~~A  625 (943)
                      .+||+|||..+|+++|+++|++||+|..|.|++    ++|||||.|.+. ++|..|+..|||..+.++.+.|.++
T Consensus        13 ~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~----~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~   83 (113)
T d1owxa_          13 LKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR----GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   83 (113)
T ss_dssp             EEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT----TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCChheEEEec----CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEe
Confidence            789999999999999999999999999999875    489999999986 6899999999999887776666654

>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=98.95  E-value=3.8e-10  Score=97.63  Aligned_cols=70  Identities=19%  Similarity=0.211  Sum_probs=60.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCHHHHHHHHHccCCcccccc-ccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTAEDASAALCCDGCSFSGSI-LKI  542 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~edA~~Al~LnG~~l~Gr~-LkV  542 (943)
                      ..|+|+|||+++|++.| .+|++||            .|.++.++.++|||||+|.+.++|.+||.+||..|+|+. |.|
T Consensus         5 ~wV~V~G~p~~~~~~il-~~F~~~G------------~I~~~~~~~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV   71 (81)
T d1wwha1           5 TWVTVFGFPQASASYIL-LQFAQYG------------NILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGV   71 (81)
T ss_dssp             GEEEEECCCGGGHHHHH-HHHHTTS------------CEEEEEECSSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEE
T ss_pred             cEEEEECCChHHHHHHH-HHHHhhh------------hhheEEecCCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEE
Confidence            57999999999996554 6899988            678888899999999999999999999999999999985 456


Q ss_pred             cCCc
Q 002280          543 KRPK  546 (943)
Q Consensus       543 ~rp~  546 (943)
                      .+..
T Consensus        72 ~~~~   75 (81)
T d1wwha1          72 KPCI   75 (81)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            6543

>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=98.93  E-value=6.6e-10  Score=100.21  Aligned_cols=60  Identities=22%  Similarity=0.427  Sum_probs=55.1

Q ss_pred             EEEE--ecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          552 AIFI--GGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       552 ~LfV--~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      +|+|  +|||..+|+++|+++|++||.|..|.+..    .+|||||+|.+.++|.+|+..|||..+
T Consensus        20 ~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~----~k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          20 SLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             EEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             eEEEECCCCCCCCCHHHHHHHHHhhCcccEEeecc----CccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            6777  55999999999999999999999998765    478999999999999999999999887

>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=98.88  E-value=1.6e-09  Score=97.29  Aligned_cols=74  Identities=18%  Similarity=0.205  Sum_probs=64.1

Q ss_pred             EEEEecC--CCCCC---------HHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEE
Q 002280          552 AIFIGGI--SRTLS---------SKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVL  620 (943)
Q Consensus       552 ~LfV~NL--p~~~t---------eedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L  620 (943)
                      +|+|.||  |..+.         .++|++.|++||.|..|.+..+  ..+|+|||+|.+.++|.+|+..|||..|+|++|
T Consensus        10 ~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i   87 (99)
T d2dita1          10 VVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI   87 (99)
T ss_dssp             EEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEETTEEC
T ss_pred             EEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEECCEEE
Confidence            8999999  54322         3689999999999999987654  467999999999999999999999999999999


Q ss_pred             EEEEccc
Q 002280          621 TAVQAVL  627 (943)
Q Consensus       621 ~V~~A~~  627 (943)
                      .|.++.+
T Consensus        88 ~v~~~~g   94 (99)
T d2dita1          88 TAQAWDG   94 (99)
T ss_dssp             EEEECCS
T ss_pred             EEEEeCC
Confidence            9998754

>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=98.87  E-value=1.1e-09  Score=100.66  Aligned_cols=69  Identities=9%  Similarity=-0.020  Sum_probs=59.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeecCCCeeeEEeCCH-HHHHHHHH-ccCCccccccc
Q 002280          463 MRRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQREKGQAFVEFLTA-EDASAALC-CDGCSFSGSIL  540 (943)
Q Consensus       463 ~rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~skGyAFVeF~s~-edA~~Al~-LnG~~l~Gr~L  540 (943)
                      ...+||||||+.+|+++|+++|++||            +|..+.+...+|||||.|.+. ++|..|+. ||+..+.++.+
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG------------~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~   78 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHG------------EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNK   78 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSC------------CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSS
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcC------------ChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCce
Confidence            44679999999999999999999988            667777778899999999995 78888888 99988887776


Q ss_pred             ccc
Q 002280          541 KIK  543 (943)
Q Consensus       541 kV~  543 (943)
                      .|.
T Consensus        79 ~v~   81 (113)
T d1owxa_          79 EVT   81 (113)
T ss_dssp             SEE
T ss_pred             EEE
Confidence            654

>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=98.85  E-value=1.8e-09  Score=93.32  Aligned_cols=70  Identities=14%  Similarity=0.213  Sum_probs=59.7

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeE-EEEEEccc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQV-LTAVQAVL  627 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~-L~V~~A~~  627 (943)
                      .|+|+|+|+.++++ +...|++||.|..+.+..    .+|||||+|.+.++|.+||+ |||..|+|+. |.|.++..
T Consensus         6 wV~V~G~p~~~~~~-il~~F~~~G~I~~~~~~~----~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           6 WVTVFGFPQASASY-ILLQFAQYGNILKHVMSN----TGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             EEEEECCCGGGHHH-HHHHHHTTSCEEEEEECS----SSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECCC
T ss_pred             EEEEECCChHHHHH-HHHHHHhhhhhheEEecC----CCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeCCC
Confidence            58999999998865 556899999999998743    58999999999999999996 9999999975 56876643

>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=96.02  E-value=0.0073  Score=48.88  Aligned_cols=65  Identities=20%  Similarity=0.174  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEEecCCCCCcceeEEEEeCCHHHHHHHHHHhCCCccCCCceEEEEec
Q 002280          678 EEVLEDVRLECARFGSVKSVNVVKYGDSNISTIQACEGNENTASAGVGQNLTNDETNEKGERLEEVT  744 (943)
Q Consensus       678 ~ei~eDlre~fskFG~V~~V~I~r~~~g~~~G~~FVeF~~~e~A~~Ai~~LnGr~~~~k~~~v~~~~  744 (943)
                      .+|.+-|...|.++|.|.+|.|.....|..  .|-|.-.+.++|.-|+..|+-++||.|-|.|+..+
T Consensus         7 kelqq~L~~~f~~h~~V~sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1           7 KELQQLLQEAFARHGKVKSVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHHHHhheeEEEEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            344556788899999999999988766665  46899999999999999999999999999987764

>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=95.51  E-value=0.012  Score=49.94  Aligned_cols=53  Identities=13%  Similarity=0.344  Sum_probs=47.1

Q ss_pred             HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEE
Q 002280          565 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQ  624 (943)
Q Consensus       565 edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~  624 (943)
                      .+|.+.|..||.|.-++++.+      ..+|+|.+-.+|.+|+. |+|.++.|+.|.|.-
T Consensus        39 ~~Llq~l~~~GeViLvRFv~d------~mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQG------QMLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETT------EEEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             HHHHHHHhhCCeEEEEEEeCC------eEEEEECCcHHHHHHhc-cCCeEEcceEEEEec
Confidence            467888999999988888654      89999999999999997 999999999999973

>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=95.02  E-value=0.036  Score=44.71  Aligned_cols=61  Identities=16%  Similarity=0.230  Sum_probs=51.8

Q ss_pred             HHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhCCCccCCeEEEEEEcc
Q 002280          565 KMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLNGLKVGGQVLTAVQAV  626 (943)
Q Consensus       565 edL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~LnG~~~~gr~L~V~~A~  626 (943)
                      +-|...|.++|+|..+.|...++ ..-.|-|...+..+|.-|+..|+..+|+++.|.|.++.
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~d-g~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTD-YQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCS-TTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHhheeEEEEEEEeccC-CcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            44677899999999998865422 34589999999999999999999999999999998763

>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=93.95  E-value=0.094  Score=44.69  Aligned_cols=64  Identities=17%  Similarity=0.208  Sum_probs=54.3

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCC----CCCCEEEEeecChhHHHHHHHHhCCCcc
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNED----HEEPCAFIEYVDQLVTPKAIAGLNGLKV  615 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~----~skG~aFVeF~~~e~A~kAl~~LnG~~~  615 (943)
                      +|.|..||+.+|++++.+.++..|.+..+.......    ..-.-|||.|.+.++...-...++|..|
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F   70 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVF   70 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEE
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEE
Confidence            689999999999999999999999888776655421    1235899999999999999999999887

>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=91.52  E-value=0.088  Score=44.49  Aligned_cols=35  Identities=34%  Similarity=0.548  Sum_probs=31.7

Q ss_pred             CCeeeEEeCCHHHHHHHHHccCCccccccccccCC
Q 002280          511 KGQAFVEFLTAEDASAALCCDGCSFSGSILKIKRP  545 (943)
Q Consensus       511 kGyAFVeF~s~edA~~Al~LnG~~l~Gr~LkV~rp  545 (943)
                      .+...|+|.+-+.|-+|+.++|+++.|+.|+|.-+
T Consensus        58 ~d~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          58 QGQMLVTFADSHSALSVLDVDGMKVKGRAVKISGP   92 (95)
T ss_dssp             TTEEEEECSCSHHHHHHHHGGGSEETTEEEEEECC
T ss_pred             CCeEEEEECCcHHHHHHhccCCeEEcceEEEEecC
Confidence            45689999999999999999999999999998754

>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=89.17  E-value=0.11  Score=44.19  Aligned_cols=69  Identities=17%  Similarity=0.249  Sum_probs=45.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHHHHhhhhccCcccccCCcceeeeeeec-CCCeeeEEeCCHHHHHHHHH-ccCCcccc
Q 002280          464 RRLCVENLPLSASEKALMEFLNNFLLSSGVQHVHGSLPCIGCVIQR-EKGQAFVEFLTAEDASAALC-CDGCSFSG  537 (943)
Q Consensus       464 rtLfVgNLP~~vTEedL~elF~~~G~~~g~~~i~~~~~v~~~~~~~-skGyAFVeF~s~edA~~Al~-LnG~~l~G  537 (943)
                      .+|.|..||+.+||+++.+.+...+...-+.-.++.     ...+. .-.-|||.|.+.+++..... ++|..|.+
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            479999999999999999988654321100000000     00011 12349999999999999888 99988754

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.32  E-value=1.2  Score=37.98  Aligned_cols=54  Identities=11%  Similarity=0.198  Sum_probs=44.5

Q ss_pred             EEEEecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCCEEEEeecChhHHHHHHHHhC
Q 002280          552 AIFIGGISRTLSSKMVMEIVCAFGPLKAYHFEVNEDHEEPCAFIEYVDQLVTPKAIAGLN  611 (943)
Q Consensus       552 ~LfV~NLp~~~teedL~e~Fs~fG~I~~v~l~~d~~~skG~aFVeF~~~e~A~kAl~~Ln  611 (943)
                      -||.-.+|..+...+|.++|++||.|.-- ++.+     -.|||...+.++|..++..+.
T Consensus        17 HVf~~tFP~~Wk~~dI~~lFSpfG~V~Vs-wIdd-----TSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          17 HVLHVTFPKEWKTSDLYQLFSAFGNIQIS-WIDD-----TSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHHTTTCSCCCE-EEET-----TEEEEECSCHHHHHHHHHHHH
T ss_pred             eeEEEeCCcccchhHHHHHhcCCCceEEE-EecC-----ceEEEEecCHHHHHHHHHHhc
Confidence            57888899999999999999999998543 3333     389999999999998887554