Citrus Sinensis ID: 048615

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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----
Protein Sequence
MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLEKQAGGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGNAESENSERKSSVEHAELQEVSQPSPTPIIAEEESPKDNVC
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccHHHHHHHHcccccEEEEEEcccccEEEEEEccHHHHHHHHcccccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccHHHHHHHHHccccccEEEEccccccccccccccccccEEEEEEccHHHHHHHHHccccccccEEEEEEEcccccccccccccccccccccccccccHHHHHHcccccccccccccccccHHHHcccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccHHHHccccccccccHcccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccHccccHHHHHHHHHHcccEEEEEEcccccEEEEEEccHHHHHHHHHcccHHEcccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEcccccEEEEEcccccccccHHHHHHHHHHcccEEEEEEccccccccccccccccccEEEEEEccHHHHHHHHHccccccccEEEEEEEcccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mddgmglngaysdsaaaggadlydpdqplwnnngpdtspglaalhssndetesllnedssnnhhlrasdsadndlpvrnagtaavsqntsmsvwgrigssknrsnvKEKIDATLNSLDylenetkedrealpslqgsyrrgkriiegdaiqknmdpstkaqndhmrnirkPSQKALRTLFVnnvplksnRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAalkspdavmgNRFIKLWWanrdsipddgisgvnvsmtshgmtaasfpahtsvtnkvkdnnlqsttlkggnivpaadvslpapdhptvitnspkpppplqkkLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLEkqaggksdvVSEKAAKRLKVGIAADVAKatarssdstaavaspraemmadknKLVDIVLSPSQKVNTAMVLQESTSFkqqirplapagppflmnrykldnrptafrimpplpvgfADVAVLKEHFssygdlasveledgevlegdngsdaskncqvrVSFTTRRSAERAFLsgkswqghdlqftwlmpssssndlgnkektstflkgssdtdvqkeekLSSVVSQEAAasgnaesenserkssvehaelqevsqpsptpiiaeeespkdnvc
Flexible Loop (DISEMBL)
MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRAsdsadndlpVRNAGTaavsqntsmsvwgrigssknrsnvkeKIDATLnsldylenetkedrealpslqgsyrrgkriiegdaiqknmdpstkaqndhmRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEaalkspdavmGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVitnspkpppplQKKLDNLEQLKEELRKKqelldqkrndFRRQLDKlekqaggksdvvsekAAKRLKVGIAadvakatarssdstaavaspraemmaDKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLegdngsdaskncqvrVSFTTRRSAERAFlsgkswqghDLQFTWLMPSSSSNDLGNKEKTStflkgssdtdvqKEEKLSSVVSqeaaasgnaesenseRKSSVEhaelqevsqpsptpiiaeeespkdnvc
Low Complexity Region (SEG)
MDDGMGLNgaysdsaaaggadlydPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSpkpppplqkklDNleqlkeelrkkqelldqkrNDFRRQLDKLEKQAGGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVsqeaaasgnaesenseRKSSVEHAELQEVSQPSPTPIIAEEESPKDNVC
Disordered region (IsUnstruct)
*******************************************************************************************************************************************************************************LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFS************DAVMGNRFIKLWWANRDSIPDDGISGV************************************************************************************************************************************************************VDIVL*****************************PPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVEL*******************VRVSFT******RAFLSGKSWQGHDLQFTWL**************************************************************************************
Disordered Region (DISOPRED)
***GMG*NGAYSDSAAAGGADLYDPDQPL****************************************************************************************************************************************************TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIP*************************************************************************************************************************************************************************************************************KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTW***************************************************************************************
Disordered Region (DISEMBL)
MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMD*********MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLE***********EKAAKRLKVGIAADV******************AEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTF****************************************************PTPIIAE*********
Disordered Region (DISPRO)
****MGLNGAYSDSAAAGGADLYDPDQPLWNNN**********************************************************SV*********************************************************************************ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRD***********************************************************************PPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLEKQ*******************************************************VLSPSQK************************PPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPS***********************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNxxxxxxxxxxxxxxxxxxxxxTKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSPKPPPPxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAGGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGNAESENSERKSSVEHAELQEVSQPSPTPIIAEEESPKDNVC
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	634	2.2.26 [Sep-21-2011]
Q9LVX1	908	Zinc finger CCCH domain-c	yes	no	0.802	0.560	0.465	1e-118
Q0JDM0	903	Zinc finger CCCH domain-c	yes	no	0.831	0.583	0.427	6e-91
Q6NZN0	1012	RNA-binding protein 26 OS	yes	no	0.107	0.067	0.4	2e-07
Q5T8P6	1007	RNA-binding protein 26 OS	yes	no	0.107	0.067	0.4	2e-07
Q5SFM8	1060	RNA-binding protein 27 OS	no	no	0.107	0.064	0.385	2e-06
Q9P2N5	1060	RNA-binding protein 27 OS	no	no	0.107	0.064	0.385	2e-06
Q2T9I5	1059	RNA-binding protein 26 OS	N/A	no	0.107	0.064	0.357	2e-06
Q9USP9	589	Uncharacterized RNA-bindi	yes	no	0.141	0.152	0.298	0.0001
Q9LEB3	428	Polyadenylate-binding pro	N/A	no	0.123	0.182	0.357	0.0003
F4I3B3	445	Polyadenylate-binding pro	no	no	0.108	0.155	0.352	0.0005

>sp|Q9LVX1|C3H41_ARATH Zinc finger CCCH domain-containing protein 41 OS=Arabidopsis thaliana GN=At3g27700 PE=1 SV=1

 Score =  426 bits (1094), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 257/552 (46%), Positives = 340/552 (61%), Gaps = 43/552 (7%)

Query: 3   DGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSSN 61
           DG+G   AY    +AGG D YDPDQPLWNN+  +TS  ++ L+S   DE  + L  D SN
Sbjct: 287 DGLGYGDAY---PSAGGTDFYDPDQPLWNNSTGETSGAISTLNSHGVDENVAPL--DDSN 341

Query: 62  NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLE 121
                  D+A+N   +R+      S++TS SVWGR+  S +++N KEK DA LNS    E
Sbjct: 342 Q------DAAENGCGIRD------SRSTSQSVWGRMKGSNSQANSKEKADAVLNSSAVPE 389

Query: 122 NETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFV 181
           ++ KE          S R GK+   G+++ K +D S+   ND M N RKP+QKA+RTLFV
Sbjct: 390 DQLKE------VSVNSSRHGKQNHVGESVAKVVD-SSNISNDMMNNTRKPTQKAMRTLFV 442

Query: 182 NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRF 241
           N VP +SNRR+ +L+HFQKFG+V+DI+IP+NSERAFVQFSKREEAE+AL++PDAVMGNRF
Sbjct: 443 NYVPHESNRRDLILAHFQKFGKVIDIHIPVNSERAFVQFSKREEAESALRAPDAVMGNRF 502

Query: 242 IKLWWANRDSIPDDGIS-GVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIV 300
           IKLWWANRDSIPD+G+S G   SM    MTA+       +    K N++ S         
Sbjct: 503 IKLWWANRDSIPDNGLSTGSGASMKGRSMTASGAQNQFPIAAASKSNHVSSIAKVPTFQT 562

Query: 301 PAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDK 360
             A  S   P    V T+ PK  P  QKK D LE+LKE LRKKQE+L+QKRN++R++L  
Sbjct: 563 GGAPSSSEQPKPVVVTTSGPKVTPLQQKKADTLERLKETLRKKQEMLEQKRNEYRKKLAT 622

Query: 361 LEKQAG-GKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDI 419
           LEKQ    K +   E  AKR+K+  A          SDS AA+ASP+ E   DK   +  
Sbjct: 623 LEKQGTVVKREEADEPDAKRVKLDTA----------SDSGAAIASPKTESSTDKKVPILK 672

Query: 420 VLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFAD 479
            LS + K++T     +S +FKQ+      +    ++NRYKLDNR T  +++PPLP G AD
Sbjct: 673 PLS-TAKLSTETPSPDSKNFKQRPYSFTTSLNAPMVNRYKLDNRTTTIKVVPPLPTGLAD 731

Query: 480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVR---VSFTTRRSAERAFLSGK 536
           VAV+KEHFSSYG+++ VELED   +  D+G D     + R   V+F  R +AE+AF + K
Sbjct: 732 VAVVKEHFSSYGEVSKVELEDNASI--DSGKDHETQNESRAACVTFVKRSAAEKAFANAK 789

Query: 537 SWQGHDLQFTWL 548
            WQ H LQ  W+
Sbjct: 790 CWQEHTLQLVWV 801

Arabidopsis thaliana (taxid: 3702)

>sp|Q0JDM0|C3H27_ORYSJ Zinc finger CCCH domain-containing protein 27 OS=Oryza sativa subsp. japonica GN=Os04g0394300 PE=2 SV=2

 Score =  335 bits (859), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 246/575 (42%), Positives = 323/575 (56%), Gaps = 48/575 (8%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSN 61
           +D + LNG  + + A   AD+YDPDQPLWNN  PD S G A        T+ + N +S  
Sbjct: 311 NDVLKLNG--TTALAVSDADVYDPDQPLWNNEHPDASAGFA-------HTDGVWNAESLG 361

Query: 62  NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLE 121
             +  A +  +  L       A  SQN+  SVWGRI S K    +     A   S     
Sbjct: 362 --YEAAREQGNQVL------AADSSQNSKSSVWGRIASKK----LGHGKTANATSTSATG 409

Query: 122 NETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLF 180
           N+  E   E  PS          +    A   N   +++   D  R   + S KA RTL+
Sbjct: 410 NKRNESYDEMAPSTV-------HVNPASAKDSNGQSNSRIFGDVGRQSNRASHKASRTLY 462

Query: 181 VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNR 240
           VN +PL+SNR EALLSHFQKFG+V+DIYIP NSE+AFVQFSKREEAEAALK+PDAVMGNR
Sbjct: 463 VNGIPLESNRWEALLSHFQKFGQVIDIYIPSNSEKAFVQFSKREEAEAALKAPDAVMGNR 522

Query: 241 FIKLWWANRDSIPDDGISGVNVSMTSHGMTAA---SFPAHTSVTNKVKDNNLQSTTLKGG 297
           FIKLWWANRD IPD+ + G   + +SH M+AA   S P   S +N+ K+ NLQS T +  
Sbjct: 523 FIKLWWANRDRIPDE-VEGRIPAKSSH-MSAALANSVP-QPSSSNRGKE-NLQSATPRAS 578

Query: 298 NIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQ 357
           +   +A+ S P   H  +  NS K  PP  K+     +L EELRKKQE+L QKR++FRRQ
Sbjct: 579 SGS-SAEASGPGTGHKMLPANSVKSLPPDTKR-QESLELLEELRKKQEILAQKRDEFRRQ 636

Query: 358 LDKLEKQAG-GKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKL 416
           L+KL KQ G   S   +E   K +    + DV + T   S +T     PR      +N+ 
Sbjct: 637 LEKLAKQKGLANSAKQAEAGGKEV---ASNDVHRVTDSKSMNT-GTEGPRDAAGTLQNRT 692

Query: 417 VDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVG 476
              + S S K +     + + + KQ    L P+      NR+KLDNR T+FRI+PPLP  
Sbjct: 693 SGELASSSHKSSATSAQKPAVATKQTSPLLVPS-----QNRFKLDNRTTSFRILPPLPPE 747

Query: 477 FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGK 536
            AD +VLK+HF S+G+L+SV LED E    D     S +C   V++TTR+SAE+AF+ GK
Sbjct: 748 IADESVLKDHFMSFGELSSVVLEDTEAYNHDATLKPSLSCSACVTYTTRQSAEKAFIGGK 807

Query: 537 SWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSS 571
           S +GH L+F WL  S  S +    +KTS   + SS
Sbjct: 808 SCKGHTLRFMWLTASPGSTNHSRFQKTSIPARASS 842

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6NZN0|RBM26_MOUSE RNA-binding protein 26 OS=Mus musculus GN=Rbm26 PE=1 SV=2

 Score = 58.5 bits (140), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAV 236
           L +  VP + N    L  HF +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV
Sbjct: 539 LELRKVPPELNNISKLNEHFSRFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAV 598

Query: 237 MGNRFIKLWW 246
           + NRFIK++W
Sbjct: 599 LNNRFIKVYW 608

Mus musculus (taxid: 10090)

>sp|Q5T8P6|RBM26_HUMAN RNA-binding protein 26 OS=Homo sapiens GN=RBM26 PE=1 SV=3

 Score = 58.2 bits (139), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAV 236
           L +  VP + N    L  HF +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV
Sbjct: 534 LELRKVPPELNNISKLNEHFSRFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAV 593

Query: 237 MGNRFIKLWW 246
           + NRFIK++W
Sbjct: 594 LNNRFIKVYW 603

Homo sapiens (taxid: 9606)

>sp|Q5SFM8|RBM27_MOUSE RNA-binding protein 27 OS=Mus musculus GN=Rbm27 PE=2 SV=3

 Score = 55.1 bits (131), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 40/70 (57%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDAV 236
           L V  +P + N    L  HF KFG +V+I +    + E A +Q+   EEA  A+ S +AV
Sbjct: 602 LEVKKIPQELNNITKLNEHFSKFGTIVNIQVAFKGDPEAALIQYLTNEEARKAISSTEAV 661

Query: 237 MGNRFIKLWW 246
           + NRFI++ W
Sbjct: 662 LNNRFIRVLW 671

Mus musculus (taxid: 10090)

>sp|Q9P2N5|RBM27_HUMAN RNA-binding protein 27 OS=Homo sapiens GN=RBM27 PE=1 SV=2

 Score = 55.1 bits (131), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 40/70 (57%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDAV 236
           L V  +P + N    L  HF KFG +V+I +    + E A +Q+   EEA  A+ S +AV
Sbjct: 602 LEVKKIPQELNNITKLNEHFSKFGTIVNIQVAFKGDPEAALIQYLTNEEARKAISSTEAV 661

Query: 237 MGNRFIKLWW 246
           + NRFI++ W
Sbjct: 662 LNNRFIRVLW 671

Homo sapiens (taxid: 9606)

>sp|Q2T9I5|RBM26_XENLA RNA-binding protein 26 OS=Xenopus laevis GN=rbm26 PE=2 SV=2

 Score = 54.7 bits (130), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/70 (35%), Positives = 42/70 (60%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDAV 236
           L +  +P + N    L  HF KFG +V++ +    + E A +QF+   EA+ A+ S +AV
Sbjct: 583 LELRRIPPELNNISKLNEHFSKFGTIVNLQVAYKGDPEGALIQFATHGEAKKAISSTEAV 642

Query: 237 MGNRFIKLWW 246
           + NRFI+++W
Sbjct: 643 LNNRFIRMYW 652

Xenopus laevis (taxid: 8355)

>sp|Q9USP9|YHP4_SCHPO Uncharacterized RNA-binding protein C902.04 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC902.04 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 7/97 (7%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL 230
           P+  AL    V N+P +    E + S F KFG +  + +        ++F+  E A  A 
Sbjct: 239 PTSTALE---VRNIPEEHFNEENIRSFFSKFGVLEKVELNPTHHSCVLEFTSHEAANNAW 295

Query: 231 KSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSH 267
            SP+ +  NRFIK++W N    P  G         SH
Sbjct: 296 SSPEPIFNNRFIKIFWYN----PSKGFHNRPKKFASH 328

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9LEB3|RBP47_NICPL Polyadenylate-binding protein RBP47 OS=Nicotiana plumbaginifolia GN=RBP47 PE=1 SV=1

 Score = 47.4 bits (111), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 43/84 (51%), Gaps = 6/84 (7%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL-KSPDAV 236
           T+FV  +  +    E L   F +FGEVV + IP      FVQFS R  A+ A+ K   A+
Sbjct: 296 TIFVGGLDSEVTDEE-LRQSFNQFGEVVSVKIPAGKGCGFVQFSDRSSAQEAIQKLSGAI 354

Query: 237 MGNRFIKLWW----ANRDSIPDDG 256
           +G + ++L W    AN+    D G
Sbjct: 355 IGKQAVRLSWGRSPANKQMRTDSG 378

Heterogeneous nuclear ribonucleoprotein (hnRNP)-protein binding the poly(A) tail of mRNA and probably involved in some steps of pre-mRNA maturation.

Nicotiana plumbaginifolia (taxid: 4092)

>sp|F4I3B3|RB47A_ARATH Polyadenylate-binding protein RBP47A OS=Arabidopsis thaliana GN=RBP47A PE=2 SV=1

 Score = 47.0 bits (110), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 2/71 (2%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-V 236
           T+FV  +       E L+  F  FGEVV + IP+     FVQF+ R+ AE A+ + +  V
Sbjct: 328 TIFVGGLDADVTE-EDLMQPFSDFGEVVSVKIPVGKGCGFVQFANRQSAEEAIGNLNGTV 386

Query: 237 MGNRFIKLWWA 247
           +G   ++L W 
Sbjct: 387 IGKNTVRLSWG 397

Heterogeneous nuclear ribonucleoprotein (hnRNP)-protein binding the poly(A) tail of mRNA and probably involved in some steps of pre-mRNA maturation.

Arabidopsis thaliana (taxid: 3702)

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	634
359488670	948	PREDICTED: zinc finger CCCH domain-conta	0.993	0.664	0.634	0.0
255567351	972	rrm/rnp domain, putative [Ricinus commun	0.974	0.635	0.595	0.0
224141287	964	predicted protein [Populus trichocarpa]	0.979	0.644	0.569	0.0
224059950	981	predicted protein [Populus trichocarpa]	0.968	0.625	0.574	0.0
356511690	922	PREDICTED: zinc finger CCCH domain-conta	0.947	0.651	0.519	1e-160
356573099	945	PREDICTED: zinc finger CCCH domain-conta	0.880	0.590	0.541	1e-153
449446871	901	PREDICTED: zinc finger CCCH domain-conta	0.911	0.641	0.495	1e-142
449489569	800	PREDICTED: zinc finger CCCH domain-conta	0.719	0.57	0.517	1e-118
17064996	908	Unknown protein [Arabidopsis thaliana]	0.802	0.560	0.465	1e-116
22331374	908	zinc finger CCCH domain-containing prote	0.802	0.560	0.465	1e-116

>gi|359488670|ref|XP_002273438.2| PREDICTED: zinc finger CCCH domain-containing protein 41-like [Vitis vinifera]

 Score =  779 bits (2011), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 405/638 (63%), Positives = 484/638 (75%), Gaps = 8/638 (1%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSS 60
           +D +GLNGA+S SA  GGA+LYDPDQPLWNN+ P+T   L ALHS   DETE LL+ +SS
Sbjct: 314 EDELGLNGAFSGSAVGGGAELYDPDQPLWNNDCPETPSALLALHSPKIDETECLLDANSS 373

Query: 61  NNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYL 120
           + +H R  D +DN  PV+N GT   SQ+T++SVWGRIG +K+R   KEKID+ ++S DYL
Sbjct: 374 DRYHARLCDGSDNGRPVKNTGTTVGSQSTNVSVWGRIGGAKDRLEAKEKIDSVISSSDYL 433

Query: 121 ENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLF 180
           ENE KED+EAL S+QG+ R+GKRII  D   KN+D S++ Q+D MRNIRKPSQKALRTLF
Sbjct: 434 ENEGKEDQEALTSVQGTSRQGKRIIVEDIGSKNVDLSSRTQSDAMRNIRKPSQKALRTLF 493

Query: 181 VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNR 240
           VN +P K+NR+EALLSHF+KFGEV+DIYIPLNSERAFVQFSKREEAEAAL++PDAVMGNR
Sbjct: 494 VNGIPQKNNRKEALLSHFRKFGEVIDIYIPLNSERAFVQFSKREEAEAALQAPDAVMGNR 553

Query: 241 FIKLWWANRDSIPDDGISGVN-VSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNI 299
           FIKLWWANRDS+PDD ISG N  S+  HG+TAAS P+H S  N+ KD NLQS   K  N 
Sbjct: 554 FIKLWWANRDSVPDDSISGGNGASVIPHGVTAASVPSHPSAVNRAKD-NLQSAAPK-VNA 611

Query: 300 VPAADVSLPAPDHPT-VITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQL 358
           V A D   P  DH   ++TN PK PPPLQKKL++LE +KEELRKKQE+LDQKRNDFRRQL
Sbjct: 612 VHAIDAPSPTSDHSKPIVTNGPKAPPPLQKKLESLELMKEELRKKQEMLDQKRNDFRRQL 671

Query: 359 DKLEKQAGG-KSDVVSEKAAKRLKVGIAADVAK-ATARSSDSTAAVASPRAEMMADKNKL 416
           DKLEKQA G K +V +E+AAKR KVGI  D AK AT R +D   AV SP+ E+  DKNK 
Sbjct: 672 DKLEKQATGLKGEVGAEQAAKRPKVGIVGDAAKAATPRCTDPGIAVGSPQTEITMDKNKS 731

Query: 417 VDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVG 476
            + V+  S K N+AMVL E T  KQ +RPLA  G P  MNRYKLDNRP  FRIM PLP G
Sbjct: 732 AENVVPYSSKTNSAMVLLEPTVLKQSVRPLALGGTPSQMNRYKLDNRPMGFRIMAPLPTG 791

Query: 477 FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGK 536
            A+V VLKEHFSSYGDL++VELED E L+G NGSDAS+NC  R+ FTTRRSAERAF++GK
Sbjct: 792 LANVGVLKEHFSSYGDLSTVELEDLEALDGGNGSDASRNCSARIIFTTRRSAERAFVNGK 851

Query: 537 SWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGNAE 596
            WQGH+L F WL+ S+S N+LG +E + +  KGSSD D+Q   K++  VS E   SGN E
Sbjct: 852 CWQGHNLHFMWLISSNSGNELGGRESSPSASKGSSDADLQPAGKVACSVSLETVLSGNGE 911

Query: 597 SENSERKSSVEHAELQEVSQPSPTPIIAEEESPKDNVC 634
            E+SERKSS+EH E     Q SPT ++ EE+SPK NVC
Sbjct: 912 PEDSERKSSMEHKEPDGNFQASPT-LLCEEQSPKSNVC 948

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255567351|ref|XP_002524655.1| rrm/rnp domain, putative [Ricinus communis] gi|223536016|gb|EEF37674.1| rrm/rnp domain, putative [Ricinus communis]

 Score =  686 bits (1769), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 379/636 (59%), Positives = 460/636 (72%), Gaps = 18/636 (2%)

Query: 1   MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSS-NDETESLLNEDS 59
           +DDGMG NGAYS SAA  GADLYDPDQPLWN NGP+TS GL ALHSS NDETES ++  +
Sbjct: 313 VDDGMGFNGAYSVSAAGSGADLYDPDQPLWNTNGPETSSGLLALHSSKNDETESFMSVGT 372

Query: 60  SNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDY 119
           S++HH R  D+ADN+  +RN      SQ TS SVWGR+GS KNR ++KEK D T+++ DY
Sbjct: 373 SDHHHGRLRDNADNECGMRNTAIPDGSQTTSSSVWGRVGSVKNRLDMKEKTDLTVSTSDY 432

Query: 120 LENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTL 179
           LENETKED++AL ++QG+ R+GKR+I  D+  K +D STK Q D MRN RK SQKAL TL
Sbjct: 433 LENETKEDQDALANIQGTSRQGKRMISEDSGPKTLDFSTKTQGDSMRNTRKSSQKALCTL 492

Query: 180 FVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGN 239
           FV+ +P K+N+R++LLSHFQKFG V+DIYIP NSERAFVQFS+REEAEAAL++PDAVMGN
Sbjct: 493 FVSGIPQKNNKRDSLLSHFQKFGLVIDIYIPSNSERAFVQFSRREEAEAALRAPDAVMGN 552

Query: 240 RFIKLWWANRDSIPDDGISGV-NVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGN 298
           RFIKLWWANRDSI  DGIS   ++S T  G+  AS P    + N+ KD NLQS   KG  
Sbjct: 553 RFIKLWWANRDSIRGDGISSCQSISATPCGVPGASVPPQPFIANRGKD-NLQSAASKGA- 610

Query: 299 IVPAADVSLPAPDHPT-VITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQ 357
            VP  D SLP  DHP  VITN PK PPP  +K   LEQLKEELRKKQELL QKRNDFRRQ
Sbjct: 611 TVPPPDASLPPTDHPKPVITNGPKVPPP-LQKKLELEQLKEELRKKQELLAQKRNDFRRQ 669

Query: 358 LDKLEKQAGG-KSDVVSEKAAKRLKVGIAADVAKA-TARSSDSTAAVASPRAEMMADKNK 415
           LDKLEKQA G K +VV E AAKR +VG+A D+ K  T RSS     V SPR E     NK
Sbjct: 670 LDKLEKQATGVKGEVVVEPAAKRHRVGMATDIVKVPTLRSSGHVLGVPSPRGE-----NK 724

Query: 416 LVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPV 475
             +  +S S K N +++ QE+T  +Q IRP+ PAG PF +NR+KLDNRPT FRI+PPLP 
Sbjct: 725 SFENPMSSSPKNNASLMQQETTGSRQPIRPVGPAGAPFSVNRFKLDNRPTTFRIIPPLPP 784

Query: 476 GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDA-SKNCQVRVSFTTRRSAERAFLS 534
           G  +V VLKEHFSSYGDL++VELED E  + ++GS+   K+C   +++ TRRSAERAFL+
Sbjct: 785 GLTNVDVLKEHFSSYGDLSTVELEDAEACDDNDGSEVPKKSCSALLTYATRRSAERAFLN 844

Query: 535 GKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGN 594
           GK WQG DLQF W+  S+S++DL  +E  S+  K   +T VQ   K+  + SQEA+ASGN
Sbjct: 845 GKCWQGKDLQFMWVTCSTSASDLSGRENISSASKCPIETGVQPAGKIDHMDSQEASASGN 904

Query: 595 AESENSERKSSVEHAELQEVSQPSPTPIIAEEESPK 630
            E E SER SS +H    EVS P PT + +E ES K
Sbjct: 905 GEPEASERNSSDDH----EVSTPCPTLVPSENESSK 936

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224141287|ref|XP_002324006.1| predicted protein [Populus trichocarpa] gi|222867008|gb|EEF04139.1| predicted protein [Populus trichocarpa]

 Score =  661 bits (1705), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/637 (56%), Positives = 459/637 (72%), Gaps = 16/637 (2%)

Query: 1   MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDS 59
           ++ G+G NGA++ SA+  G DLYDPDQPLWN++ P+TS  L A HS   DE ES+++ DS
Sbjct: 302 VNAGLGFNGAHTGSASVSGGDLYDPDQPLWNDSVPETSSALIAPHSPKIDEIESMISIDS 361

Query: 60  SNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDY 119
            +++H+     ADN+ P+R+ G A  S++ + SVWG++ +S NR +VKEK D T++ L+ 
Sbjct: 362 FDHNHVSLRGGADNECPIRSTGIAVHSESLNSSVWGKVRASNNRLHVKEKTDLTVSMLNN 421

Query: 120 LENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTL 179
           +E+E+KE++ AL +++G+ R+GK+I   D+  K +D   K Q++ MR+  KPSQKALRTL
Sbjct: 422 MESESKENQGALANVRGTSRQGKQINFEDSSAKTIDSPAKTQSNTMRHTPKPSQKALRTL 481

Query: 180 FVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGN 239
           FVN +P KSN+REALLSHFQKFGEV+DIYIPLN+ERAFVQFSKREEAEAAL++PDAVMGN
Sbjct: 482 FVNGIPQKSNKREALLSHFQKFGEVIDIYIPLNTERAFVQFSKREEAEAALRAPDAVMGN 541

Query: 240 RFIKLWWANRDSIPDDGISGVN-VSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGN 298
           RFI+LWWANRDSIPD G    N VS+T  G+T+ SFP H  + N  KD NLQ +  K   
Sbjct: 542 RFIRLWWANRDSIPDGGAGSSNSVSVTPRGVTSTSFPPHLPIGNSGKD-NLQLSVSK-AT 599

Query: 299 IVPAADVSLPAPDHPTVI-TNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQ 357
            VP +   +PA DH  VI TN PK PPP+Q KL++LEQLKEELRKKQELLDQKRNDFRRQ
Sbjct: 600 AVPPSVAPVPAIDHSKVITTNVPKVPPPMQ-KLESLEQLKEELRKKQELLDQKRNDFRRQ 658

Query: 358 LDKLEKQAGG-KSDVVSEKAAKRLKVGI-AADVAK-ATARSSDSTAAVASPRAEMMADKN 414
           LDKLEKQA G K +V +E A+KR K GI A+D+ K AT RS+D  +  ASP AEM+ DKN
Sbjct: 659 LDKLEKQATGVKGEVTAEPASKRHKTGIPASDIVKAATPRSADPGS--ASPHAEMV-DKN 715

Query: 415 KLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLP 474
           K V+ V+S S K    M LQ+S   K  I PLAP GPPFLMN+YKLDNRPTAF+I+ PLP
Sbjct: 716 KTVENVVSSSSKTCVMMALQDSAGSKPSIHPLAPVGPPFLMNKYKLDNRPTAFKIISPLP 775

Query: 475 VGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS 534
            G A+VA LKE+FSSYGDL++VELED        GS+  KNC   V+FTTRRSAERAFL+
Sbjct: 776 AGLANVATLKEYFSSYGDLSAVELEDEPSDYDGVGSETLKNCSACVTFTTRRSAERAFLN 835

Query: 535 GKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGS-SDTDVQKEEKLSSVVSQEAAASG 593
           GK WQG +L+F WL  S+SSN+ G+ +  ++F      DTD Q  EKL+ + SQEA+ASG
Sbjct: 836 GKCWQGKNLKFAWLTSSTSSNEPGSGQ--NSFAPNCLVDTD-QSVEKLACLDSQEASASG 892

Query: 594 NAESENSERKSSVEHAELQEVSQPSPTPIIAEEESPK 630
           N   ENSE  +     EL E  Q     I+ E ESPK
Sbjct: 893 NGGPENSEINNGTGPIELHEALQCHSASILGEAESPK 929

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059950|ref|XP_002300018.1| predicted protein [Populus trichocarpa] gi|222847276|gb|EEE84823.1| predicted protein [Populus trichocarpa]

 Score =  658 bits (1697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 372/648 (57%), Positives = 451/648 (69%), Gaps = 34/648 (5%)

Query: 1   MDDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDS 59
           +DDG+GLNGAY+ S +  G DLYDPDQPLWN+NGP+TS  L A HS   DETES+++ D 
Sbjct: 311 VDDGLGLNGAYTGSVSVSGGDLYDPDQPLWNDNGPETSSTLLAPHSPKFDETESMISVDP 370

Query: 60  SNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDY 119
           S+++H R  D ADN+ P+R+ G A   Q  + SVWGRIGS  NR +VKEKID+T +   Y
Sbjct: 371 SDHNHARLRDGADNECPIRSTGIAVGFQGMNSSVWGRIGSLNNRLDVKEKIDSTASMSSY 430

Query: 120 LENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTL 179
           +E+E+KED+ AL ++ G+  +GK     D   K MD   K  +D MR+ RK SQKALRTL
Sbjct: 431 MESESKEDQGALDNVHGTSHQGKCTNFDDCGTKTMDSPAKIHSDTMRHTRKLSQKALRTL 490

Query: 180 FVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGN 239
           FVN +P KSN+R+ALLSHFQKFGEV+DIYIPLNSERAF+QFSKREEAEAAL++PDAVMGN
Sbjct: 491 FVNGIPHKSNKRDALLSHFQKFGEVIDIYIPLNSERAFIQFSKREEAEAALRAPDAVMGN 550

Query: 240 RFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNI 299
           RFI+LWWANRDSIPDD         TS G+ A S   H S+ N  KD NLQ    K   +
Sbjct: 551 RFIRLWWANRDSIPDDA--------TSRGVPATSGLPHLSIGNSGKD-NLQLAISK-TTV 600

Query: 300 VPAADVSLPAPDHPTV-ITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQL 358
           VP +D S+PA DHP V ITN P+  PP+QKKL+NLEQLKEELRKKQELLDQKRNDFRRQL
Sbjct: 601 VPTSDTSMPATDHPKVDITNGPEVSPPMQKKLENLEQLKEELRKKQELLDQKRNDFRRQL 660

Query: 359 DKLEKQAGG-KSDVVSEKAAKRLKVGIAADVAK-ATARSSDSTAAVASPRAEMMADKNKL 416
            KLEKQA G K +V +E A+KR K GIA+DVAK AT RS+D  A VASP   ++ DKNK 
Sbjct: 661 HKLEKQATGVKGEVATEPASKRQKTGIASDVAKAATTRSADPGAGVASPHGGIV-DKNKR 719

Query: 417 VDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVG 476
           ++ ++S S K +T M LQES   KQ I PLAP GPPFLMN+YKLDNRPTAF+I+ PLP G
Sbjct: 720 MENIVSSSTKTSTVMALQESAGSKQSIHPLAPVGPPFLMNKYKLDNRPTAFKIISPLPAG 779

Query: 477 FADVA---VLK-------EHFSSYGDLASVELED----GEVLEGDNGSDASKNCQVRVSF 522
            A+     +LK       EHFSSYG L+SVELED     +     +GSD  K+C  RV+F
Sbjct: 780 LANSCHDKMLKVPCGNNREHFSSYGYLSSVELEDEPGDYDGDGNGDGSDTVKSCSARVTF 839

Query: 523 TTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLS 582
            TRRSAERAFL+GK WQG +L+F WLM S+SS  +G   + S+  K     DVQ  + L+
Sbjct: 840 ATRRSAERAFLNGKCWQGKNLKFEWLMTSTSS--IG---ENSSAPKCLVHADVQPVKNLA 894

Query: 583 SVVSQEAAASGNAESENSERKSSVEHAELQEVSQPSPTPIIAEEESPK 630
            + SQE  ASGN E EN ER +     EL + SQ     I  E ESPK
Sbjct: 895 RLDSQEVPASGNGEPENPERNNGAGPTELDKASQCCSASISGEVESPK 942

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511690|ref|XP_003524556.1| PREDICTED: zinc finger CCCH domain-containing protein 41-like [Glycine max]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 333/641 (51%), Positives = 426/641 (66%), Gaps = 40/641 (6%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSS 60
           DDG+ L+G Y+      GADLYDPDQPLWN+ G ++S  L  L SS  DE++ + N    
Sbjct: 314 DDGLPLDGVYTGPGCTSGADLYDPDQPLWNDCGLESSNALLTLQSSKIDESKPISN---- 369

Query: 61  NNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYL 120
                   D+ D+D PV  A T+  SQ  S SVW RIGSSKNR ++KEK ++T +S +Y 
Sbjct: 370 --------DAPDSDCPVGTARTSVSSQGASSSVWARIGSSKNRFDMKEKTNSTTSSFNYP 421

Query: 121 ENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLF 180
           EN+ KED + L     +  + K+ I  DA  K ++ S KAQ D MRNIRK SQKA  TLF
Sbjct: 422 ENQLKEDNDELVGAHNASFQVKQNIADDADPKALEASLKAQTDSMRNIRKSSQKAFCTLF 481

Query: 181 VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNR 240
           VN +P K N+REALL+HF+KFGEV+DIYIPLNSERAFVQFSKREEAEAALK+PDAVMGNR
Sbjct: 482 VNGIPQKYNKREALLAHFKKFGEVIDIYIPLNSERAFVQFSKREEAEAALKAPDAVMGNR 541

Query: 241 FIKLWWANRDSI-PDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNI 299
           FIKLWWANRDSI  D   SG  V +T  G   A  P+H  VT++ KD +    +     +
Sbjct: 542 FIKLWWANRDSIRKDSTTSGNGVIVTPRGQAPAFVPSHPVVTDRGKDIHQADASKTMYEV 601

Query: 300 VPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLD 359
               D S P      VIT+ PK PPPLQKKL NLE LKEELRKKQE+LDQKRN+F+RQL+
Sbjct: 602 SSPTDQSKP------VITDGPKVPPPLQKKLVNLESLKEELRKKQEMLDQKRNEFKRQLN 655

Query: 360 KLEKQAGG-KSDVVSEKAAKRLKVGIAADVAK-ATARSSDSTAAVASPRAEMMADKNKLV 417
           K EKQA G K +V +E+A KRLK+G  +DVAK A+ +SSD+   + SP  E  ADKNK +
Sbjct: 656 KFEKQASGLKGEVSTEQATKRLKMGGTSDVAKLASPQSSDADVGMTSPHTEATADKNKQL 715

Query: 418 DIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGF 477
              +S S K +TA  LQEST  K  I+PL P      +NRYKLDNRP AFRI+PPLP G 
Sbjct: 716 VYPVSQSPKSSTATRLQESTGLKHPIQPLMP------VNRYKLDNRPAAFRIIPPLPAGL 769

Query: 478 ADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKS 537
           A+VAVLKEHFS YG+L++VELED +V      +D+S+  +  ++FTTR +AERAF++GK 
Sbjct: 770 ANVAVLKEHFSPYGELSAVELEDVQV------NDSSQQ-EAHITFTTRWAAERAFINGKC 822

Query: 538 WQGHDLQFTWLMPS--SSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGNA 595
           W  H+L+FTWL P+  SSSN  G++E + +  K   D+D   EEKL + V+QE+  S +A
Sbjct: 823 WNDHNLKFTWLTPTSSSSSNATGSREPSLSAPKEPLDSDDHSEEKLDNSVNQESIVS-DA 881

Query: 596 ESENSERKSSVEHAELQEVSQPSPTP--IIAEEESPKDNVC 634
           E +NSE  + +E  E +    P  T   + + ++SP+ N C
Sbjct: 882 EHKNSETNNGLELVEREPSEDPQSTTRQVSSPKQSPEGNFC 922

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573099|ref|XP_003554702.1| PREDICTED: zinc finger CCCH domain-containing protein 41-like [Glycine max]

 Score =  548 bits (1412), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 323/597 (54%), Positives = 407/597 (68%), Gaps = 39/597 (6%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSS 60
           DDG+ L+G Y+      GADLYDPDQPLWN+ G ++S  L  L SS  DE+E + N    
Sbjct: 314 DDGLPLDGVYTGPGCTSGADLYDPDQPLWNDCGLESSNALLTLQSSKIDESEPISN---- 369

Query: 61  NNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYL 120
                   D+ D+D PV  A T+  SQ TS SVW RIGSSKNR ++KEK ++T++S +Y 
Sbjct: 370 --------DAPDSDCPVGTARTSVSSQGTSSSVWARIGSSKNRFDMKEKTNSTMSSFNYP 421

Query: 121 ENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLF 180
           EN+ KED + L S   +  + K+ I  DA  K ++ S KAQ D MRNIRK SQKAL TLF
Sbjct: 422 ENQLKEDNDELVSAHNASFQVKQSIADDADPKALEASLKAQTDSMRNIRKSSQKALCTLF 481

Query: 181 VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNR 240
           VN +P K+N+REALL+HF+KFGEV+DIYIPLNSERAFVQFSKREEAEAALK+PDAVMGNR
Sbjct: 482 VNGIPQKNNKREALLAHFKKFGEVIDIYIPLNSERAFVQFSKREEAEAALKAPDAVMGNR 541

Query: 241 FIKLWWANRDSI-PDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNI 299
           FIKLWWANRDSI  D   SG  V +T  G   A  P+H  VT++ KD + Q+   K    
Sbjct: 542 FIKLWWANRDSIRKDSTTSGNGVIVTPRGQAPAFVPSHPVVTDRGKDIH-QADASKT--- 597

Query: 300 VPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLD 359
               +VS P      VIT+ PK PPPLQKKL NLE LKEELRKKQE+LDQKRN+F+RQL+
Sbjct: 598 --MYEVSSPTDQSKPVITDGPKVPPPLQKKLVNLENLKEELRKKQEMLDQKRNEFKRQLN 655

Query: 360 KLEKQAGG-KSDVVSEKAAKRLKVGIAADVAK-ATARSSDSTAAVASPRAEMMADKNKLV 417
           K EKQA G K +V +E+AAKRLK+ + +DVAK A+ +SSD+   +ASP  E  ADKNK +
Sbjct: 656 KFEKQASGLKGEVSTEQAAKRLKMCVPSDVAKLASPQSSDADVGMASPHTEAAADKNKQL 715

Query: 418 DIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGF 477
              +S S K +TA  LQEST  K  I+PL P      +NRYKLDNRP AF I+PPLP G 
Sbjct: 716 VNPVSRSPKASTATRLQESTGLKHPIQPLMP------VNRYKLDNRPAAFCIIPPLPSGL 769

Query: 478 ADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKS 537
           A+VAVLKEHFS YG+L++VELED +V      +D+S+  +  ++FTTR +AERAF++GK 
Sbjct: 770 ANVAVLKEHFSPYGELSAVELEDVQV------NDSSQQ-EAHITFTTRWAAERAFINGKC 822

Query: 538 WQGHDLQFTWLMP----SSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAA 590
           W  H+L+F WL P    S SSN   ++E++ +  K   D+D   EE L + V+QEA 
Sbjct: 823 WNDHNLKFMWLTPTSSSSISSNATASRERSLSAPKEPLDSDDHSEENLENCVNQEAV 879

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446871|ref|XP_004141194.1| PREDICTED: zinc finger CCCH domain-containing protein 41-like [Cucumis sativus]

 Score =  513 bits (1320), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 308/621 (49%), Positives = 394/621 (63%), Gaps = 43/621 (6%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSS 60
           DD M  +G YS S +AG ADLYDPDQPLWNNN P+    L+ +HSS  DE ES + +D S
Sbjct: 310 DDSMPFHGVYSGSGSAGEADLYDPDQPLWNNNCPEKPNALSGMHSSKIDEVESFIGDDPS 369

Query: 61  NNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYL 120
           + + +R  D+ DN    R    +  S  TS SVWGR+GS +NR +VK K+D  +N+   L
Sbjct: 370 DRNQVRKCDAGDNGCTSRITAPSG-SHVTSSSVWGRVGS-RNRQDVKGKLDP-VNASGCL 426

Query: 121 ENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQND--HMRNIRKPSQKALRT 178
           +NE KE    L S+QG+  + K + + DA  K  D S KAQ+D   MR +RKPSQKA  T
Sbjct: 427 DNEVKEQNVVLASVQGNSHQQKHMAQDDAHTKAGDLSLKAQSDANTMRTMRKPSQKATCT 486

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMG 238
           LFVN +PL+SN+ E LLSHF K+GEV+DIYIP NS+RAFVQFSKREEAEAALKSPDAVMG
Sbjct: 487 LFVNGIPLQSNKTETLLSHFNKYGEVIDIYIPANSQRAFVQFSKREEAEAALKSPDAVMG 546

Query: 239 NRFIKLWWANRDSIPDDGISGVN-VSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGG 297
           NRFIKLWWANRDSIPDDG+S  N + +    + AAS P+       VK  N    +   G
Sbjct: 547 NRFIKLWWANRDSIPDDGVSSNNGIHVPPRHIAAASLPSLA-----VKGKNSVPVSTSKG 601

Query: 298 NIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQ 357
           +I    + SL  PDH    + SPK   PLQKKL+NLEQLKEELRKKQ++LD KRNDFRRQ
Sbjct: 602 SISHPLESSLAGPDHSHAFS-SPKVSSPLQKKLENLEQLKEELRKKQQMLDMKRNDFRRQ 660

Query: 358 LDKLEKQA-GGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKL 416
           LDKLEKQA G K + V+  +AKRLKVGI AD +K   ++SDS+ A++SP  E+  +    
Sbjct: 661 LDKLEKQATGNKVEAVTGSSAKRLKVGIEADTSKLVPKASDSSVALSSPHTEVNGEH--- 717

Query: 417 VDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVG 476
                    +  T++V QES+ F + + P+     PF  +  KL +  T F+I+PPLPV 
Sbjct: 718 --------PEPTTSIVQQESSKF-EPVDPMT-TEEPFDNDGEKLGSCSTGFKIVPPLPVD 767

Query: 477 FADVAVLKEHFSSYGDLASVEL--EDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS 534
           FA+  V+K+HFSS GD+ SVE   EDG  +     S+AS NC   V+F TR SAERAF  
Sbjct: 768 FANEDVIKQHFSSLGDVCSVEFVSEDGVQI-----SNASNNCSANVTFLTRHSAERAFED 822

Query: 535 GKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQKEEKLSSVVSQEAAASGN 594
           G+SWQG DL+F WL     SND   K+   T    S D D++ E + +  +S     S +
Sbjct: 823 GRSWQGQDLKFIWL-----SND---KDPHHTSSDTSRDADMEPENEEAETISLNETLS-H 873

Query: 595 AESENSERKSSVEHAELQEVS 615
            ES++  R  S E +E  +VS
Sbjct: 874 KESQSPTRDDSDEPSETGKVS 894

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449489569|ref|XP_004158351.1| PREDICTED: zinc finger CCCH domain-containing protein 41-like [Cucumis sativus]

 Score =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 250/483 (51%), Positives = 317/483 (65%), Gaps = 27/483 (5%)

Query: 2   DDGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSS 60
           DD M  +G YS S +AG ADLYDPDQPLWNNN P+    L+ +HSS  DE ES + +D S
Sbjct: 310 DDSMPFHGVYSGSGSAGEADLYDPDQPLWNNNCPEKPNALSGMHSSKIDEVESFIGDDPS 369

Query: 61  NNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYL 120
           + + +R  D+ DN    R    +  S  TS SVWGR+GS +NR +VK K+D  +N+   L
Sbjct: 370 DRNQVRKCDAGDNGCTSRITAPSG-SHVTSSSVWGRVGS-RNRQDVKGKLDP-VNASGCL 426

Query: 121 ENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQND--HMRNIRKPSQKALRT 178
           +NE KE    L S+QG+  + K + + DA  K  D S KAQ+D   MR +RKPSQKA  T
Sbjct: 427 DNEVKEQNVVLASVQGNSHQQKHMAQDDAHTKAGDLSLKAQSDANTMRTMRKPSQKATCT 486

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMG 238
           LFVN +PL+SN+ E LLSHF K+GEV+DIYIP NS+RAFVQFSKREEAEAALKSPDAVMG
Sbjct: 487 LFVNGIPLQSNKTETLLSHFNKYGEVIDIYIPANSQRAFVQFSKREEAEAALKSPDAVMG 546

Query: 239 NRFIKLWWANRDSIPDDGISGVN-VSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGG 297
           NRFIKLWWANRDSIPDDG+S  N + +    + AAS P+       VK  N    +   G
Sbjct: 547 NRFIKLWWANRDSIPDDGVSSNNGIHVPPRHIAAASLPSLA-----VKGKNSVPVSTSKG 601

Query: 298 NIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQ 357
           +I    + SL  PDH    + SPK   PLQKKL+NLEQLKEELRKKQ++LD KRNDFRRQ
Sbjct: 602 SISHPLESSLAGPDHSHAFS-SPKVSSPLQKKLENLEQLKEELRKKQQMLDMKRNDFRRQ 660

Query: 358 LDKLEKQA-GGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKL 416
           LDKLEKQA G K + V+  +AKRLKVGI AD +K   ++SDS+ A++SP  E+  +    
Sbjct: 661 LDKLEKQATGNKVEAVTGSSAKRLKVGIEADTSKLVPKASDSSVALSSPHTEVNGEH--- 717

Query: 417 VDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVG 476
                    +  T++V QES+ F + + P+     PF  +  KL +  T F+I+PPLPV 
Sbjct: 718 --------PEPTTSIVQQESSKF-EPVDPMT-TEEPFDNDGEKLGSCSTGFKIVPPLPVD 767

Query: 477 FAD 479
           FA+
Sbjct: 768 FAN 770

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|17064996|gb|AAL32652.1| Unknown protein [Arabidopsis thaliana]

 Score =  426 bits (1094), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 257/552 (46%), Positives = 340/552 (61%), Gaps = 43/552 (7%)

Query: 3   DGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSSN 61
           DG+G   AY    +AGG D YDPDQPLWNN+  +TS  ++ L+S   DE  + L  D SN
Sbjct: 287 DGLGYGDAY---PSAGGTDFYDPDQPLWNNSTGETSGAISTLNSHGVDENVAPL--DDSN 341

Query: 62  NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLE 121
                  D+A+N   +R+      S++TS SVWGR+  S +++N KEK DA LNS    E
Sbjct: 342 Q------DAAENGCGIRD------SRSTSQSVWGRMKGSNSQANSKEKADAVLNSSAVPE 389

Query: 122 NETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFV 181
           ++ KE          S R GK+   G+++ K +D S+   ND M N RKP+QKA+RTLFV
Sbjct: 390 DQLKE------VSVNSSRHGKQNHVGESVAKVVD-SSNISNDMMNNTRKPTQKAMRTLFV 442

Query: 182 NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRF 241
           N VP +SNRR+ +L+HFQKFG+V+DI+IP+NSERAFVQFSKREEAE+AL++PDAVMGNRF
Sbjct: 443 NYVPHESNRRDLILAHFQKFGKVIDIHIPVNSERAFVQFSKREEAESALRAPDAVMGNRF 502

Query: 242 IKLWWANRDSIPDDGIS-GVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIV 300
           IKLWWANRDSIPD+G+S G   SM    MTA+       +    K N++ S         
Sbjct: 503 IKLWWANRDSIPDNGLSTGSGASMKGRSMTASGAQNQFPIAAASKSNHVSSIAKVPTFQT 562

Query: 301 PAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDK 360
             A  S   P    V T+ PK  P  QKK D LE+LKE LRKKQE+L+QKRN++R++L  
Sbjct: 563 GGAPSSSEQPKPVVVTTSGPKVTPLQQKKADTLERLKETLRKKQEMLEQKRNEYRKKLAT 622

Query: 361 LEKQAG-GKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDI 419
           LEKQ    K +   E  AKR+K+  A          SDS AA+ASP+ E   DK   +  
Sbjct: 623 LEKQGTVVKREEADEPDAKRVKLDTA----------SDSGAAIASPKTESSTDKKVPILK 672

Query: 420 VLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFAD 479
            LS + K++T     +S +FKQ+      +    ++NRYKLDNR T  +++PPLP G AD
Sbjct: 673 PLS-TAKLSTETPSPDSKNFKQRPYSFTTSLNAPMVNRYKLDNRTTTIKVVPPLPTGLAD 731

Query: 480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVR---VSFTTRRSAERAFLSGK 536
           VAV+KEHFSSYG+++ VELED   +  D+G D     + R   V+F  R +AE+AF + K
Sbjct: 732 VAVVKEHFSSYGEVSKVELEDNASI--DSGKDHETQNESRAACVTFVKRSAAEKAFANAK 789

Query: 537 SWQGHDLQFTWL 548
            WQ H LQ  W+
Sbjct: 790 CWQEHTLQLVWV 801

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22331374|ref|NP_189407.2| zinc finger CCCH domain-containing protein 41 [Arabidopsis thaliana] gi|30688891|ref|NP_851008.1| zinc finger CCCH domain-containing protein 41 [Arabidopsis thaliana] gi|75335571|sp|Q9LVX1.1|C3H41_ARATH RecName: Full=Zinc finger CCCH domain-containing protein 41; Short=AtC3H41 gi|9294475|dbj|BAB02694.1| unnamed protein product [Arabidopsis thaliana] gi|23397275|gb|AAN31919.1| unknown protein [Arabidopsis thaliana] gi|225898683|dbj|BAH30472.1| hypothetical protein [Arabidopsis thaliana] gi|332643832|gb|AEE77353.1| zinc finger CCCH domain-containing protein 41 [Arabidopsis thaliana] gi|332643833|gb|AEE77354.1| zinc finger CCCH domain-containing protein 41 [Arabidopsis thaliana]

 Score =  426 bits (1094), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 257/552 (46%), Positives = 340/552 (61%), Gaps = 43/552 (7%)

Query: 3   DGMGLNGAYSDSAAAGGADLYDPDQPLWNNNGPDTSPGLAALHSSN-DETESLLNEDSSN 61
           DG+G   AY    +AGG D YDPDQPLWNN+  +TS  ++ L+S   DE  + L  D SN
Sbjct: 287 DGLGYGDAY---PSAGGTDFYDPDQPLWNNSTGETSGAISTLNSHGVDENVAPL--DDSN 341

Query: 62  NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLE 121
                  D+A+N   +R+      S++TS SVWGR+  S +++N KEK DA LNS    E
Sbjct: 342 Q------DAAENGCGIRD------SRSTSQSVWGRMKGSNSQANSKEKADAVLNSSAVPE 389

Query: 122 NETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFV 181
           ++ KE          S R GK+   G+++ K +D S+   ND M N RKP+QKA+RTLFV
Sbjct: 390 DQLKE------VSVNSSRHGKQNHVGESVAKVVD-SSNISNDMMNNTRKPTQKAMRTLFV 442

Query: 182 NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRF 241
           N VP +SNRR+ +L+HFQKFG+V+DI+IP+NSERAFVQFSKREEAE+AL++PDAVMGNRF
Sbjct: 443 NYVPHESNRRDLILAHFQKFGKVIDIHIPVNSERAFVQFSKREEAESALRAPDAVMGNRF 502

Query: 242 IKLWWANRDSIPDDGIS-GVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIV 300
           IKLWWANRDSIPD+G+S G   SM    MTA+       +    K N++ S         
Sbjct: 503 IKLWWANRDSIPDNGLSTGSGASMKGRSMTASGAQNQFPIAAASKSNHVSSIAKVPTFQT 562

Query: 301 PAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDK 360
             A  S   P    V T+ PK  P  QKK D LE+LKE LRKKQE+L+QKRN++R++L  
Sbjct: 563 GGAPSSSEQPKPVVVTTSGPKVTPLQQKKADTLERLKETLRKKQEMLEQKRNEYRKKLAT 622

Query: 361 LEKQAG-GKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAAVASPRAEMMADKNKLVDI 419
           LEKQ    K +   E  AKR+K+  A          SDS AA+ASP+ E   DK   +  
Sbjct: 623 LEKQGTVVKREEADEPDAKRVKLDTA----------SDSGAAIASPKTESSTDKKVPILK 672

Query: 420 VLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNRPTAFRIMPPLPVGFAD 479
            LS + K++T     +S +FKQ+      +    ++NRYKLDNR T  +++PPLP G AD
Sbjct: 673 PLS-TAKLSTETPSPDSKNFKQRPYSFTTSLNAPMVNRYKLDNRTTTIKVVPPLPTGLAD 731

Query: 480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVR---VSFTTRRSAERAFLSGK 536
           VAV+KEHFSSYG+++ VELED   +  D+G D     + R   V+F  R +AE+AF + K
Sbjct: 732 VAVVKEHFSSYGEVSKVELEDNASI--DSGKDHETQNESRAACVTFVKRSAAEKAFANAK 789

Query: 537 SWQGHDLQFTWL 548
            WQ H LQ  W+
Sbjct: 790 CWQEHTLQLVWV 801

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	634
TAIR|locus:2089094	908	AT3G27700 [Arabidopsis thalian	0.813	0.568	0.406	4.6e-89
DICTYBASE|DDB_G0277217	1163	DDB_G0277217 "RNA-binding prot	0.315	0.171	0.240	2.1e-14
ZFIN|ZDB-GENE-050706-50	1009	zgc:109736 "zgc:109736" [Danio	0.195	0.122	0.305	7.7e-12
UNIPROTKB|E1BQE3	986	RBM26 "Uncharacterized protein	0.118	0.076	0.389	7.8e-10
UNIPROTKB|E1BQE4	1011	RBM26 "Uncharacterized protein	0.118	0.074	0.389	8.3e-10
UNIPROTKB|F1P7R9	980	RBM26 "Uncharacterized protein	0.347	0.224	0.247	2e-09
UNIPROTKB|J9NRX5	1007	RBM26 "Uncharacterized protein	0.347	0.218	0.247	2.2e-09
UNIPROTKB|Q5T8P6	1007	RBM26 "RNA-binding protein 26"	0.347	0.218	0.247	2.2e-09
UNIPROTKB|F1RP70	1007	RBM26 "Uncharacterized protein	0.347	0.218	0.247	2.2e-09
UNIPROTKB|Q2T9I5	1059	rbm26 "RNA-binding protein 26"	0.216	0.129	0.282	5.4e-09

TAIR|locus:2089094 AT3G27700 [Arabidopsis thaliana (taxid:3702)]

 Score = 889 (318.0 bits), Expect = 4.6e-89, P = 4.6e-89
 Identities = 223/548 (40%), Positives = 309/548 (56%)

Query:    45 HSSNDETESLLNEDSSN--NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKN 102
             ++S  ET   ++  +S+  + ++   D ++ D      G    S++TS SVWGR+  S +
Sbjct:   312 NNSTGETSGAISTLNSHGVDENVAPLDDSNQDAAENGCGIRD-SRSTSQSVWGRMKGSNS 370

Query:   103 RSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQN 162
             ++N KEK DA LNS    E++ KE      S+  S R GK+   G+++ K +D S+   N
Sbjct:   371 QANSKEKADAVLNSSAVPEDQLKE-----VSVNSS-RHGKQNHVGESVAKVVD-SSNISN 423

Query:   163 DHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSK 222
             D M N RKP+QKA+RTLFVN VP +SNRR+ +L+HFQKFG+V+DI+IP+NSERAFVQFSK
Sbjct:   424 DMMNNTRKPTQKAMRTLFVNYVPHESNRRDLILAHFQKFGKVIDIHIPVNSERAFVQFSK 483

Query:   223 REEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGIS-GVNVSMTSHGMTAASFPAHTSVT 281
             REEAE+AL++PDAVMGNRFIKLWWANRDSIPD+G+S G   SM    MTA+       + 
Sbjct:   484 REEAESALRAPDAVMGNRFIKLWWANRDSIPDNGLSTGSGASMKGRSMTASGAQNQFPIA 543

Query:   282 NKVKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSXXXXX-XXXXXXDNXXXXXXXX 340
                K N++ S           A  S   P  P V+T S            D         
Sbjct:   544 AASKSNHVSSIAKVPTFQTGGAPSSSEQPK-PVVVTTSGPKVTPLQQKKADTLERLKETL 602

Query:   341 XXXXXXXXXXXNDFRRQLDKLEKQAGG-KSDVVSEKAAKRLKVGIAADVAKATARSSDST 399
                        N++R++L  LEKQ    K +   E  AKR+K+    D A      SDS 
Sbjct:   603 RKKQEMLEQKRNEYRKKLATLEKQGTVVKREEADEPDAKRVKL----DTA------SDSG 652

Query:   400 AAVASPRAEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYK 459
             AA+ASP+ E   DK   +   LS + K++T     +S +FKQ+      +    ++NRYK
Sbjct:   653 AAIASPKTESSTDKKVPILKPLSTA-KLSTETPSPDSKNFKQRPYSFTTSLNAPMVNRYK 711

Query:   460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVR 519
             LDNR T  +++PPLP G ADVAV+KEHFSSYG+++ VELED   +  D+G D     + R
Sbjct:   712 LDNRTTTIKVVPPLPTGLADVAVVKEHFSSYGEVSKVELEDNASI--DSGKDHETQNESR 769

Query:   520 ---VSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDTDVQ 576
                V+F  R +AE+AF + K WQ H LQ  W+    S+ +  N    S  L  S D ++ 
Sbjct:   770 AACVTFVKRSAAEKAFANAKCWQEHTLQLVWVT-RQSNRESNNNNNNSNSLSVSRD-NLS 827

Query:   577 KEEKLSSV 584
              + K +SV
Sbjct:   828 SKNKCASV 835

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

DICTYBASE|DDB_G0277217 DDB_G0277217 "RNA-binding protein 27" [Dictyostelium discoideum (taxid:44689)]

 Score = 206 (77.6 bits), Expect = 2.1e-14, Sum P(2) = 2.1e-14
 Identities = 52/216 (24%), Positives = 104/216 (48%)

Query:    31 NNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTS 90
             NNN  + +    ++   N      +N++  + ++   +++ +N++   N      + N +
Sbjct:   454 NNNNINNNQPSFSMMDQNQMYIGQMNQNQMDFNN-HNNNNNNNNMDFNNMDFNINNNNNN 512

Query:    91 MSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAI 150
              +++    ++ N +N+    +  +N+ +   N   ED E     Q +     R   G+  
Sbjct:   513 NNIYNNNNNNNNNNNINNNNNNNINNNNNSNNYNNEDDEEFNDFQNNNNNNNR---GNKQ 569

Query:   151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP 210
               N+  S+            PS ++ + L + N+PL+ N  E +  HF KFG + +I   
Sbjct:   570 YDNIKTSSNC----------PSSESTK-LVITNIPLQQNIEEEIREHFSKFGTITNI-TK 617

Query:   211 LNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWW 246
             L++ ++ ++FS   EA  A+KSP+A+M NRFIKL+W
Sbjct:   618 LSTAKSMIEFSNNSEAMKAMKSPEAIMNNRFIKLFW 653

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

ZFIN|ZDB-GENE-050706-50 zgc:109736 "zgc:109736" [Danio rerio (taxid:7955)]

 Score = 158 (60.7 bits), Expect = 7.7e-12, Sum P(2) = 7.7e-12
 Identities = 41/134 (30%), Positives = 67/134 (50%)

Query:   156 PSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-- 213
             P+    N H  + + P   A   L +  +P + N    L  HF KFG +V++ +  N+  
Sbjct:   519 PNFSKPNHHGFHRKVPFPLANTKLAIGQIPPELNNISKLNQHFSKFGTIVNLQVAYNNDP 578

Query:   214 ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSH-GMTAA 272
             E A +QF+  EEA  A++S +AV+ NRFI++ W   D++        ++    H  +  A
Sbjct:   579 EGALIQFATPEEARRAIQSTEAVLNNRFIRVHWHREDTVE-------HMHPKPHPSVQPA 631

Query:   273 SFPAHTSVTNKVKD 286
               PA T++   VKD
Sbjct:   632 QEPAVTALKQSVKD 645

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E1BQE3 RBM26 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 143 (55.4 bits), Expect = 7.8e-10, Sum P(2) = 7.8e-10
 Identities = 30/77 (38%), Positives = 44/77 (57%)

Query:   179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAV 236
             L +  VP + N    L  HF KFG +V++ +      E A +QF+  EEA+ A+ S +AV
Sbjct:   532 LELRKVPPELNNISKLNDHFSKFGNLVNLQVAYQGDPEGALIQFATHEEAKKAISSTEAV 591

Query:   237 MGNRFIKLWWANRDSIP 253
             + NRFIK++W    S P
Sbjct:   592 LNNRFIKVYWHREGSAP 608

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E1BQE4 RBM26 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 143 (55.4 bits), Expect = 8.3e-10, Sum P(2) = 8.3e-10
 Identities = 30/77 (38%), Positives = 44/77 (57%)

Query:   179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAV 236
             L +  VP + N    L  HF KFG +V++ +      E A +QF+  EEA+ A+ S +AV
Sbjct:   533 LELRKVPPELNNISKLNDHFSKFGNLVNLQVAYQGDPEGALIQFATHEEAKKAISSTEAV 592

Query:   237 MGNRFIKLWWANRDSIP 253
             + NRFIK++W    S P
Sbjct:   593 LNNRFIKVYWHREGSAP 609

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0010923 "negative regulation of phosphatase activity" evidence=IEA

UNIPROTKB|F1P7R9 RBM26 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 141 (54.7 bits), Expect = 2.0e-09, Sum P(2) = 2.0e-09
 Identities = 58/234 (24%), Positives = 96/234 (41%)

Query:    25 PDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAA 84
             P  P    +G D  P  A        T  + ++       L  +D+ D D    N    +
Sbjct:   382 PPLPPLQPSGMDAPPNSATSSVPTVVTTGIHHQPPPAPPSLFTADTYDTD--GYNPEAPS 439

Query:    85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRI 144
             ++ NTS  ++ R      R N+   I  T   +D    E   ++ ++  +  S  R + I
Sbjct:   440 IT-NTSRPMY-RHRVHAQRPNL---IGLTSGDMDLPPREKPPNKSSMRIVVDSESRKRTI 494

Query:   145 IEGDA---IQKNMDPSTKAQNDHMRNIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQ 199
               G+     +K           +    +K  Q       L +  VP + N    L  HF 
Sbjct:   495 GSGEPGAPTKKTWFDKPNFNRTNSPGFQKKVQFGNENTKLELRKVPPELNNISKLNEHFS 554

Query:   200 KFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDS 251
             +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV+ NRFIK++W    S
Sbjct:   555 RFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAVLNNRFIKVYWHREGS 608

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9NRX5 RBM26 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 141 (54.7 bits), Expect = 2.2e-09, Sum P(2) = 2.2e-09
 Identities = 58/234 (24%), Positives = 96/234 (41%)

Query:    25 PDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAA 84
             P  P    +G D  P  A        T  + ++       L  +D+ D D    N    +
Sbjct:   382 PPLPPLQPSGMDAPPNSATSSVPTVVTTGIHHQPPPAPPSLFTADTYDTD--GYNPEAPS 439

Query:    85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRI 144
             ++ NTS  ++ R      R N+   I  T   +D    E   ++ ++  +  S  R + I
Sbjct:   440 IT-NTSRPMY-RHRVHAQRPNL---IGLTSGDMDLPPREKPPNKSSMRIVVDSESRKRTI 494

Query:   145 IEGDA---IQKNMDPSTKAQNDHMRNIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQ 199
               G+     +K           +    +K  Q       L +  VP + N    L  HF 
Sbjct:   495 GSGEPGAPTKKTWFDKPNFNRTNSPGFQKKVQFGNENTKLELRKVPPELNNISKLNEHFS 554

Query:   200 KFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDS 251
             +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV+ NRFIK++W    S
Sbjct:   555 RFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAVLNNRFIKVYWHREGS 608

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q5T8P6 RBM26 "RNA-binding protein 26" [Homo sapiens (taxid:9606)]

 Score = 141 (54.7 bits), Expect = 2.2e-09, Sum P(2) = 2.2e-09
 Identities = 58/234 (24%), Positives = 96/234 (41%)

Query:    25 PDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAA 84
             P  P    +G D  P  A        T  + ++       L  +D+ D D    N    +
Sbjct:   382 PPLPPLQPSGMDAPPNSATSSVPTVVTTGIHHQPPPAPPSLFTADTYDTD--GYNPEAPS 439

Query:    85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRI 144
             ++ NTS  ++ R      R N+   I  T   +D    E   ++ ++  +  S  R + I
Sbjct:   440 IT-NTSRPMY-RHRVHAQRPNL---IGLTSGDMDLPPREKPPNKSSMRIVVDSESRKRTI 494

Query:   145 IEGDA---IQKNMDPSTKAQNDHMRNIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQ 199
               G+     +K           +    +K  Q       L +  VP + N    L  HF 
Sbjct:   495 GSGEPGVPTKKTWFDKPNFNRTNSPGFQKKVQFGNENTKLELRKVPPELNNISKLNEHFS 554

Query:   200 KFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDS 251
             +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV+ NRFIK++W    S
Sbjct:   555 RFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAVLNNRFIKVYWHREGS 608

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0010923 "negative regulation of phosphatase activity" evidence=IDA

UNIPROTKB|F1RP70 RBM26 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 141 (54.7 bits), Expect = 2.2e-09, Sum P(2) = 2.2e-09
 Identities = 58/234 (24%), Positives = 96/234 (41%)

Query:    25 PDQPLWNNNGPDTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAA 84
             P  P    +G D  P  A        T  + ++       L  +D+ D D    N    +
Sbjct:   382 PPLPPLQPSGMDAPPNSATSSVPTVVTTGIHHQPPPAPPSLFTADTYDTD--GYNPEAPS 439

Query:    85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRI 144
             ++ NTS  ++ R      R N+   I  T   +D    E   ++ ++  +  S  R + I
Sbjct:   440 IT-NTSRPMY-RHRVHAQRPNL---IGLTSGDMDLPPREKPPNKSSMRIVVDSESRKRTI 494

Query:   145 IEGDA---IQKNMDPSTKAQNDHMRNIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQ 199
               G+     +K           +    +K  Q       L +  VP + N    L  HF 
Sbjct:   495 GSGEPGVPTKKTWFDKPNFNRTNSPGFQKKVQFGNENTKLELRKVPPELNNISKLNEHFS 554

Query:   200 KFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDS 251
             +FG +V++ +  N   E A +QF+  EEA+ A+ S +AV+ NRFIK++W    S
Sbjct:   555 RFGTLVNLQVAYNGDPEGALIQFATYEEAKKAISSTEAVLNNRFIKVYWHREGS 608

GO:0010923 "negative regulation of phosphatase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q2T9I5 rbm26 "RNA-binding protein 26" [Xenopus laevis (taxid:8355)]

 Score = 133 (51.9 bits), Expect = 5.4e-09, Sum P(2) = 5.4e-09
 Identities = 41/145 (28%), Positives = 69/145 (47%)

Query:   114 LNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMR-NI---R 169
             L S D ++  T  ++  +  +  S  R + +  GD +  +  P     N + R N    +
Sbjct:   514 LTSGD-MDLPTPREKNNMRIVVDSESRKRNLGSGDCVLPSKKPWFDKSNFNNRMNPGFQK 572

Query:   170 KPSQKALRT-LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEA 226
             KP      T L +  +P + N    L  HF KFG +V++ +      E A +QF+   EA
Sbjct:   573 KPLFPNENTKLELRRIPPELNNISKLNEHFSKFGTIVNLQVAYKGDPEGALIQFATHGEA 632

Query:   227 EAALKSPDAVMGNRFIKLWWANRDS 251
             + A+ S +AV+ NRFI+++W    S
Sbjct:   633 KKAISSTEAVLNNRFIRMYWHREGS 657

GO:0010923 "negative regulation of phosphatase activity" evidence=ISS

---

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: fgenesh4_pg.C_LG_I002101 hypothetical protein (981 aa) (Populus trichocarpa)

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	634
cd12257	72	cd12257, RRM1_RBM26_like, RNA recognition motif 1	4e-30
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-10
smart00360	73	smart00360, RRM, RNA recognition motif	2e-10
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	3e-10
cd12516	76	cd12516, RRM1_RBM26, RNA recognition motif 1 of ve	2e-09
cd12517	76	cd12517, RRM_RBM27, RNA recognition motif of verte	3e-09
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	5e-09
cd12350	74	cd12350, RRM3_SHARP, RNA recognition motif 3 in SM	3e-08
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	4e-08
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-07
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	1e-07
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	1e-07
cd12258	72	cd12258, RRM2_RBM26_like, RNA recognition motif 2	1e-07
cd12312	84	cd12312, RRM_SRSF10_SRSF12, RNA recognition motif	1e-07
cd12443	73	cd12443, RRM_MCM3A_like, RNA recognition motif in	2e-07
cd12224	74	cd12224, RRM_RBM22, RNA recognition motif (RRM) fo	3e-07
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	4e-07
cd12233	70	cd12233, RRM_Srp1p_AtRSp31_like, RNA recognition m	5e-07
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	2e-06
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	2e-06
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	7e-06
cd12311	73	cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in	1e-05
cd12297	78	cd12297, RRM2_Prp24, RNA recognition motif 2 in fu	1e-05
cd12351	77	cd12351, RRM4_SHARP, RNA recognition motif 4 in SM	1e-05
cd12223	84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	2e-05
cd12322	71	cd12322, RRM2_TDP43, RNA recognition motif 2 in TA	4e-05
cd12441	73	cd12441, RRM_Nup53_like, RNA recognition motif in	5e-05
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	5e-05
cd12355	80	cd12355, RRM_RBM18, RNA recognition motif in eukar	7e-05
cd12242	73	cd12242, RRM_SLIRP, RNA recognition motif found in	7e-05
cd12332	71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	7e-05
cd12349	74	cd12349, RRM2_SHARP, RNA recognition motif 2 in SM	8e-05
cd12258	72	cd12258, RRM2_RBM26_like, RNA recognition motif 2	1e-04
cd12223	84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	1e-04
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	1e-04
cd12431	80	cd12431, RRM_ALKBH8, RNA recognition motif in alky	1e-04
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	1e-04
cd12240	78	cd12240, RRM_NCBP2, RNA recognition motif found in	2e-04
cd12559	84	cd12559, RRM_SRSF10, RNA recognition motif in seri	2e-04
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	2e-04
cd12466	70	cd12466, RRM2_AtRSp31_like, RNA recognition motif	2e-04
cd12360	78	cd12360, RRM_cwf2, RNA recognition motif in yeast	3e-04
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	3e-04
cd12246	78	cd12246, RRM1_U1A_like, RNA recognition motif 1 in	3e-04
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	3e-04
cd12343	66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	4e-04
cd12560	84	cd12560, RRM_SRSF12, RNA recognition motif in seri	4e-04
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	7e-04
cd12394	91	cd12394, RRM1_RBM34, RNA recognition motif 1 in RN	7e-04
cd12278	84	cd12278, RRM_eIF3B, RNA recognition motif in eukar	7e-04
cd12546	77	cd12546, RRM_RBM43, RNA recognition motif in verte	0.001
cd12357	89	cd12357, RRM_PPARGC1A_like, RNA recognition motif	0.001
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	0.001
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.002
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	0.002
cd12279	74	cd12279, RRM_TUT1, RNA recognition motif in speckl	0.002
cd12422	85	cd12422, RRM2_PTBP1_hnRNPL_like, RNA recognition m	0.003
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	0.003
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	0.003
cd12637	80	cd12637, RRM2_FCA, RNA recognition motif 2 in plan	0.004

>gnl|CDD|240703 cd12257, RRM1_RBM26_like, RNA recognition motif 1 in vertebrate RNA-binding protein 26 (RBM26) and similar proteins

 Score =  112 bits (283), Expect = 4e-30
 Identities = 35/71 (49%), Positives = 45/71 (63%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAV 236
            TL V N+P + N    L  HF KFG +V+I +  N E A VQFS  EEA+ A +SP+AV
Sbjct: 2   TTLEVRNIPPELNNITKLNEHFSKFGTIVNIQVNYNPESALVQFSTSEEAKKAYRSPEAV 61

Query: 237 MGNRFIKLWWA 247
             NRFIK++W 
Sbjct: 62  FNNRFIKVFWH 72

This subfamily corresponds to the RRM1 of RBM26, and the RRM of RBM27. RBM26, also known as cutaneous T-cell lymphoma (CTCL) tumor antigen se70-2, represents a cutaneous lymphoma (CL)-associated antigen. It contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The RRMs may play some functional roles in RNA-binding or protein-protein interactions. RBM27 contains only one RRM; its biological function remains unclear. . Length = 72

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

 Score = 57.3 bits (139), Expect = 1e-10
 Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 7/72 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKSP 233
           LFV N+P      E L   F KFGE+  + I  + +      AFV+F   E+AE AL++ 
Sbjct: 1   LFVGNLP-PDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEAL 59

Query: 234 D-AVMGNRFIKL 244
           +   +  R +K+
Sbjct: 60  NGKELDGRKLKV 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|214636 smart00360, RRM, RNA recognition motif

 Score = 56.8 bits (138), Expect = 2e-10
 Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 8/74 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
           TLFV N+P  +   E L   F KFG+V  + +  + E       AFV+F   E+AE AL+
Sbjct: 1   TLFVGNLPPDTTEEE-LRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALE 59

Query: 232 SPD-AVMGNRFIKL 244
           + +   +  R +K+
Sbjct: 60  ALNGKELDGRPLKV 73

Length = 73

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

 Score = 56.0 bits (136), Expect = 3e-10
 Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 6/70 (8%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALKSPD 234
           L+V N+P      + L   F  +G+V  + +  N +R    AFV+F+  E+AEAALK  +
Sbjct: 1   LYVRNLPPSVTEED-LREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALKKLN 59

Query: 235 A-VMGNRFIK 243
             V+  R ++
Sbjct: 60  GLVLDGRTLR 69

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

>gnl|CDD|240960 cd12516, RRM1_RBM26, RNA recognition motif 1 of vertebrate RNA-binding protein 26 (RBM26)

 Score = 54.3 bits (130), Expect = 2e-09
 Identities = 28/70 (40%), Positives = 42/70 (60%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--ERAFVQFSKREEAEAALKSPDAV 236
           L +  VP + N    L  HF KFG +V++ +      E A +QF+  EEA+ A+ S +AV
Sbjct: 4   LELRKVPPELNNISKLNEHFSKFGTLVNLQVAYKGDPEGALIQFATHEEAKKAISSTEAV 63

Query: 237 MGNRFIKLWW 246
           + NRFIK++W
Sbjct: 64  LNNRFIKVYW 73

This subgroup corresponds to the RRM1 of RBM26, also known as cutaneous T-cell lymphoma (CTCL) tumor antigen se70-2, which represents a cutaneous lymphoma (CL)-associated antigen. It contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The RRMs may play some functional roles in RNA-binding or protein-protein interactions. . Length = 76

>gnl|CDD|240961 cd12517, RRM_RBM27, RNA recognition motif of vertebrate RNA-binding protein 27 (RBM27)

 Score = 53.5 bits (128), Expect = 3e-09
 Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 2/70 (2%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDAV 236
           L V  +P   N    L  HF KFG +V+I +    + E A +Q+   EEA  A+ S +AV
Sbjct: 4   LEVRKIPQDLNNITQLNEHFSKFGTIVNIQVAFQGDPEAALIQYLTNEEARRAISSTEAV 63

Query: 237 MGNRFIKLWW 246
           + NRFI++ W
Sbjct: 64  LNNRFIRVLW 73

This subgroup corresponds to the RRM of RBM27 which contains a single RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Although the specific function of the RRM in RBM27 remains unclear, it shows high sequence similarity with RRM1of RBM26, which functions as a cutaneous lymphoma (CL)-associated antigen. . Length = 76

>gnl|CDD|240830 cd12384, RRM_RBM24_RBM38_like, RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins

 Score = 52.6 bits (127), Expect = 5e-09
 Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 7/77 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             +FV  +P  +   ++L  +F +FGE+ +  +  + +        FV F  +E AE A 
Sbjct: 1   TKIFVGGLPYHTTD-DSLRKYFSQFGEIEEAVVITDRQTGKSRGYGFVTFKDKESAERAC 59

Query: 231 KSPDAVMGNRFIKLWWA 247
           K P+ ++  R   +  A
Sbjct: 60  KDPNPIIDGRKANVNLA 76

This subfamily corresponds to the RRM of RBM24 and RBM38 from vertebrate, SUPpressor family member SUP-12 from Caenorhabditis elegans and similar proteins. Both, RBM24 and RBM38, are preferentially expressed in cardiac and skeletal muscle tissues. They regulate myogenic differentiation by controlling the cell cycle in a p21-dependent or -independent manner. RBM24, also termed RNA-binding region-containing protein 6, interacts with the 3'-untranslated region (UTR) of myogenin mRNA and regulates its stability in C2C12 cells. RBM38, also termed CLL-associated antigen KW-5, or HSRNASEB, or RNA-binding region-containing protein 1(RNPC1), or ssDNA-binding protein SEB4, is a direct target of the p53 family. It is required for maintaining the stability of the basal and stress-induced p21 mRNA by binding to their 3'-UTRs. It also binds the AU-/U-rich elements in p63 3'-UTR and regulates p63 mRNA stability and activity. SUP-12 is a novel tissue-specific splicing factor that controls muscle-specific splicing of the ADF/cofilin pre-mRNA in C. elegans. All family members contain a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 76

>gnl|CDD|240796 cd12350, RRM3_SHARP, RNA recognition motif 3 in SMART/HDAC1-associated repressor protein (SHARP) and similar proteins

 Score = 50.5 bits (121), Expect = 3e-08
 Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYI---PLNSERAFVQFSKREEAEAALK 231
           A RTLF+ N+  K+     L   F++FGE++DI I     N   AF+Q++       A++
Sbjct: 1   ATRTLFIGNLE-KTTTYSDLREAFERFGEIIDIDIKKQGGNPAYAFIQYADIASVVKAMR 59

Query: 232 SPDAV-MGNRFIKL 244
             D   +GN  +KL
Sbjct: 60  KMDGEYLGNNRVKL 73

This subfamily corresponds to the RRM3 of SHARP, also termed Msx2-interacting protein (MINT), or SPEN homolog, an estrogen-inducible transcriptional repressor that interacts directly with the nuclear receptor corepressor SMRT, histone deacetylases (HDACs) and components of the NuRD complex. SHARP recruits HDAC activity and binds to the steroid receptor RNA coactivator SRA through four conserved N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), further suppressing SRA-potentiated steroid receptor transcription activity. Thus, SHARP has the capacity to modulate both liganded and nonliganded nuclear receptors. SHARP also has been identified as a component of transcriptional repression complexes in Notch/RBP-Jkappa signaling pathways. In addition to the N-terminal RRMs, SHARP possesses a C-terminal SPOC domain (Spen paralog and ortholog C-terminal domain), which is highly conserved among Spen proteins. . Length = 74

>gnl|CDD|240792 cd12346, RRM3_NGR1_NAM8_like, RNA recognition motif 3 in yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8 and similar proteins

 Score = 50.0 bits (120), Expect = 4e-08
 Identities = 26/71 (36%), Positives = 36/71 (50%), Gaps = 4/71 (5%)

Query: 178 TLFVNN-VPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL-KSPDA 235
           T+FV    P  +   + L S F  FGE+V + IP      FVQF  R  AEAA+ +    
Sbjct: 3   TVFVGGLDPAVTE--DELRSLFGPFGEIVYVKIPPGKGCGFVQFVHRAAAEAAIQQLQGT 60

Query: 236 VMGNRFIKLWW 246
           ++G   I+L W
Sbjct: 61  IIGGSRIRLSW 71

This subfamily corresponds to the RRM3 of NGR1 and NAM8. NGR1, also termed RNA-binding protein RBP1, is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA) in yeast. It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the carboxyl terminus which also harbors a methionine-rich region. The family also includes protein NAM8, which is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. Like NGR1, NAM8 contains two RRMs. . Length = 72

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

 Score = 49.1 bits (118), Expect = 1e-07
 Identities = 24/71 (33%), Positives = 34/71 (47%), Gaps = 7/71 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKS- 232
           LFV N+P      E L   F KFG +  I I  +        AFV+F   E+AE AL++ 
Sbjct: 1   LFVGNLP-PDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEAL 59

Query: 233 PDAVMGNRFIK 243
               +G R ++
Sbjct: 60  NGKELGGRELR 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|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 49.5 bits (119), Expect = 1e-07
 Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 13/80 (16%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEV--VDIYIPLNSER----AFVQFSKREEAEAAL 230
           RT+F+ N+P  +   E L   F +FGEV    I     +      AFV+F  +E A+  L
Sbjct: 1   RTVFIRNLPFDATE-EELKELFSQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESAQKCL 59

Query: 231 K------SPDAVMGNRFIKL 244
           +           +  R + +
Sbjct: 60  EAADNAEDSGLSLDGRRLIV 79

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|206064 pfam13893, RRM_5, RNA recognition motif

 Score = 48.3 bits (116), Expect = 1e-07
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 194 LLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKS-PDAVMGNRFIKLWWA 247
           L   F  FG V  I +       AFV+FS  E AE A++     + G R +++ ++
Sbjct: 1   LYKLFSPFGNVEKIKLLKKKPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDYS 56

(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|240704 cd12258, RRM2_RBM26_like, RNA recognition motif 2 of vertebrate RNA-binding protein 26 (RBM26) and similar proteins

 Score = 48.8 bits (117), Expect = 1e-07
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 20/90 (22%)

Query: 460 LDNRPTAFRIMPPLPVGFA--DVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQ 517
           LD RP    +      GF   D   L  HF+ +G++  VE+++             +   
Sbjct: 1   LDRRPRQLSV-----TGFTEEDKDELLAHFAQFGEIEDVEVDE-------------EGLH 42

Query: 518 VRVSFTTRRSAERAFLSGKSWQGHDLQFTW 547
           + ++F TR+ AE A + G+ ++G  L  +W
Sbjct: 43  LVITFKTRKEAEIAAVRGRRFKGKSLILSW 72

This subfamily corresponds to the RRM2 of RBM26, also known as cutaneous T-cell lymphoma (CTCL) tumor antigen se70-2, which represents a cutaneous lymphoma (CL)-associated antigen. RBM26 contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The RRMs may play some functional roles in RNA-binding or protein-protein interactions. Length = 72

>gnl|CDD|240758 cd12312, RRM_SRSF10_SRSF12, RNA recognition motif in serine/arginine-rich splicing factor SRSF10, SRSF12 and similar proteins

 Score = 49.3 bits (118), Expect = 1e-07
 Identities = 30/81 (37%), Positives = 45/81 (55%), Gaps = 10/81 (12%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SER----AFVQFSKREEAEAALK 231
           +L+V NV   + R + L   F K+G +VD+YIPL+  + R    A+VQF    +AE AL 
Sbjct: 2   SLYVRNVA-DATRPDDLRRLFGKYGPIVDVYIPLDFYTRRPRGFAYVQFEDVRDAEDALY 60

Query: 232 SPD--AVMGNRFIKLWWANRD 250
             D    +G R I++ +A  D
Sbjct: 61  YLDRTRFLG-REIEIQFAQGD 80

This subfamily corresponds to the RRM of SRSF10 and SRSF12. SRSF10, also termed 40 kDa SR-repressor protein (SRrp40), or FUS-interacting serine-arginine-rich protein 1 (FUSIP1), or splicing factor SRp38, or splicing factor, arginine/serine-rich 13A (SFRS13A), or TLS-associated protein with Ser-Arg repeats (TASR). It is a serine-arginine (SR) protein that acts as a potent and general splicing repressor when dephosphorylated. It mediates global inhibition of splicing both in M phase of the cell cycle and in response to heat shock. SRSF10 emerges as a modulator of cholesterol homeostasis through the regulation of low-density lipoprotein receptor (LDLR) splicing efficiency. It also regulates cardiac-specific alternative splicing of triadin pre-mRNA and is required for proper Ca2+ handling during embryonic heart development. In contrast, the phosphorylated SRSF10 functions as a sequence-specific splicing activator in the presence of a nuclear cofactor. It activates distal alternative 5' splice site of adenovirus E1A pre-mRNA in vivo. Moreover, SRSF10 strengthens pre-mRNA recognition by U1 and U2 snRNPs. SRSF10 localizes to the nuclear speckles and can shuttle between nucleus and cytoplasm. SRSF12, also termed 35 kDa SR repressor protein (SRrp35), or splicing factor, arginine/serine-rich 13B (SFRS13B), or splicing factor, arginine/serine-rich 19 (SFRS19), is a serine/arginine (SR) protein-like alternative splicing regulator that antagonizes authentic SR proteins in the modulation of alternative 5' splice site choice. For instance, it activates distal alternative 5' splice site of the adenovirus E1A pre-mRNA in vivo. Both, SRSF10 and SRSF12, contain a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

>gnl|CDD|240889 cd12443, RRM_MCM3A_like, RNA recognition motif in 80 kDa MCM3-associated protein (Map80) and similar proteins

 Score = 48.5 bits (116), Expect = 2e-07
 Identities = 18/54 (33%), Positives = 26/54 (48%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK 231
           T+   N+P + N ++ L  HF KFG+V  +Y     + A V F     A  A K
Sbjct: 2   TIQCKNIPDELNDKDWLERHFGKFGKVARVYCNPRKKSAVVHFFDHASAALAKK 55

This subfamily corresponds to the RRM of Map80, also termed germinal center-associated nuclear protein (GANP), involved in the nuclear localization pathway of MCM3, a protein necessary for the initiation of DNA replication and also involves in controls that ensure DNA replication is initiated once per cell cycle. Map80 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 73

>gnl|CDD|240670 cd12224, RRM_RBM22, RNA recognition motif (RRM) found in Pre-mRNA-splicing factor RBM22 and similar proteins

 Score = 48.0 bits (115), Expect = 3e-07
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 3/74 (4%)

Query: 176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK--SP 233
           + TL+V  +  +   ++ L  HF +FGE+  I +    + AFV F+ RE AE A +    
Sbjct: 1   ITTLYVGGLGERVTEKD-LRDHFYQFGEIRSITVVPRQQCAFVTFTTREAAEKAAERLFN 59

Query: 234 DAVMGNRFIKLWWA 247
             ++  R +KL W 
Sbjct: 60  KLIINGRRLKLKWG 73

This subgroup corresponds to the RRM of RBM22 (also known as RNA-binding motif protein 22, or Zinc finger CCCH domain-containing protein 16), a newly discovered RNA-binding motif protein which belongs to the SLT11 gene family. SLT11 gene encoding protein (Slt11p) is a splicing factor in yeast, which is required for spliceosome assembly. Slt11p has two distinct biochemical properties: RNA-annealing and RNA-binding activities. RBM22 is the homolog of SLT11 in vertebrate. It has been reported to be involved in pre-splicesome assembly and to interact with the Ca2+-signaling protein ALG-2. It also plays an important role in embryogenesis. RBM22 contains a conserved RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a zinc finger of the unusual type C-x8-C-x5-C-x3-H, and a C-terminus that is unusually rich in the amino acids Gly and Pro, including sequences of tetraprolines. Length = 74

>gnl|CDD|240744 cd12298, RRM3_Prp24, RNA recognition motif 3 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 47.6 bits (114), Expect = 4e-07
 Identities = 25/76 (32%), Positives = 33/76 (43%), Gaps = 10/76 (13%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---------AFVQFSKREEAE 227
           R ++V N+  K +  + L   F KFGEV  I IP   +          AFV F     AE
Sbjct: 1   REIYVRNLDFKLDE-DDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAE 59

Query: 228 AALKSPDAVMGNRFIK 243
            AL+     +G R I 
Sbjct: 60  NALQLNGTELGGRKIS 75

This subfamily corresponds to the RRM3 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

>gnl|CDD|240679 cd12233, RRM_Srp1p_AtRSp31_like, RNA recognition motif found in fission yeast pre-mRNA-splicing factor Srp1p, Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins

 Score = 47.1 bits (112), Expect = 5e-07
 Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 5/63 (7%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVM 237
           TLFV      + R E +   F+ FG +V   I      AFV+F   E+A  AL   +A+ 
Sbjct: 1   TLFVVGFDPGTTREEDIEKLFEPFGPLVRCDIRKTF--AFVEFEDSEDATKAL---EALH 55

Query: 238 GNR 240
           G+R
Sbjct: 56  GSR 58

This subfamily corresponds to the RRM of Srp1p and RRM2 of plant SR splicing factors. Srp1p is encoded by gene srp1 from fission yeast Schizosaccharomyces pombe. It plays a role in the pre-mRNA splicing process, but is not essential for growth. Srp1p is closely related to the SR protein family found in Metazoa. It contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a glycine hinge and a RS domain in the middle, and a C-terminal domain. The family also includes a novel group of arginine/serine (RS) or serine/arginine (SR) splicing factors existing in plants, such as A. thaliana RSp31, RSp35, RSp41 and similar proteins. Like vertebrate RS splicing factors, these proteins function as plant splicing factors and play crucial roles in constitutive and alternative splicing in plants. They all contain two RRMs at their N-terminus and an RS domain at their C-terminus. Length = 70

>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 = 45.8 bits (109), Expect = 2e-06
 Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 7/62 (11%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           LFV N+P  +   E L   F+ FGE+ ++++PL+ E       AFV F   E A  A   
Sbjct: 2   LFVRNLPFTTTEEE-LRELFEAFGEISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSE 60

Query: 233 PD 234
            D
Sbjct: 61  LD 62

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|240766 cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition motif 6 in RNA-binding protein 19 (RBM19 or RBD-1) and RNA recognition motif 5 in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 6/60 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKS 232
            L V NVP ++ ++E L   F  FG+V  + +P   +      AFV+F  ++EA+ A+++
Sbjct: 2   KLIVRNVPFEATKKE-LRELFSPFGQVKSVRLPKKFDGSHRGFAFVEFVTKQEAQNAMEA 60

This subfamily corresponds to the RRM6 of RBM19 and RRM5 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes. It is 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 = 76

>gnl|CDD|240793 cd12347, RRM_PPIE, RNA recognition motif in cyclophilin-33 (Cyp33) and similar proteins

 Score = 43.8 bits (104), Expect = 7e-06
 Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 7/58 (12%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
           L+V  +  + +  + L + F  FG++ DI IPL+ E       AFV+F + E+A AA+
Sbjct: 1   LYVGGLAEEVDE-KVLHAAFIPFGDIKDIQIPLDYETQKHRGFAFVEFEEPEDAAAAI 57

This subfamily corresponds to the RRM of Cyp33, also termed peptidyl-prolyl cis-trans isomerase E (PPIase E), or cyclophilin E, or rotamase E. Cyp33 is a nuclear RNA-binding cyclophilin with an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal PPIase domain. Cyp33 possesses RNA-binding activity and preferentially binds to polyribonucleotide polyA and polyU, but hardly to polyG and polyC. It binds specifically to mRNA, which can stimulate its PPIase activity. Moreover, Cyp33 interacts with the third plant homeodomain (PHD3) zinc finger cassette of the mixed lineage leukemia (MLL) proto-oncoprotein and a poly-A RNA sequence through its RRM domain. It further mediates downregulation of the expression of MLL target genes HOXC8, HOXA9, CDKN1B, and C-MYC, in a proline isomerase-dependent manner. Cyp33 also possesses a PPIase activity that catalyzes cis-trans isomerization of the peptide bond preceding a proline, which has been implicated in the stimulation of folding and conformational changes in folded and unfolded proteins. The PPIase activity can be inhibited by the immunosuppressive drug cyclosporin A. . Length = 73

>gnl|CDD|240757 cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in serine/arginine-rich splicing factor SRSF2, SRSF8 and similar proteins

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 7/62 (11%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSER----AFVQFSKREEAEAALKS 232
           L V+N+  ++   + L   F+K+GEV D+YIP    +      AFV+F  + +AE A+ +
Sbjct: 1   LKVDNLTYRT-TPDDLRRVFEKYGEVGDVYIPRDRYTRESRGFAFVRFYDKRDAEDAMDA 59

Query: 233 PD 234
            D
Sbjct: 60  MD 61

This subfamily corresponds to the RRM of SRSF2 and SRSF8. SRSF2, also termed protein PR264, or splicing component, 35 kDa (splicing factor SC35 or SC-35), is a prototypical SR protein that plays important roles in the alternative splicing of pre-mRNA. It is also involved in transcription elongation by directly or indirectly mediating the recruitment of elongation factors to the C-terminal domain of polymerase II. SRSF2 is exclusively localized in the nucleus and is restricted to nuclear processes. It contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. The RRM is responsible for the specific recognition of 5'-SSNG-3' (S=C/G) RNA. In the regulation of alternative splicing events, it specifically binds to cis-regulatory elements on the pre-mRNA. The RS domain modulates SRSF2 activity through phosphorylation, directly contacts RNA, and promotes protein-protein interactions with the spliceosome. SRSF8, also termed SRP46 or SFRS2B, is a novel mammalian SR splicing factor encoded by a PR264/SC35 functional retropseudogene. SRSF8 is localized in the nucleus and does not display the same activity as PR264/SC35. It functions as an essential splicing factor in complementing a HeLa cell S100 extract deficient in SR proteins. Like SRSF2, SRSF8 contains a single N-terminal RRM and a C-terminal RS domain. . Length = 73

>gnl|CDD|240743 cd12297, RRM2_Prp24, RNA recognition motif 2 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 43.7 bits (104), Expect = 1e-05
 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 6/59 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP---LNSERAF--VQFSKREEAEAALK 231
           TL+V N P   ++ + +   F+++GE++ I  P    N  R F  VQF+  E A AA+ 
Sbjct: 2   TLWVTNFPPSFDQSD-IRDLFEQYGEILSIRFPSLRFNKTRRFCYVQFTSPESAAAAVA 59

This subfamily corresponds to the RRM2 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

>gnl|CDD|240797 cd12351, RRM4_SHARP, RNA recognition motif 4 in SMART/HDAC1-associated repressor protein (SHARP) and similar proteins

 Score = 43.0 bits (102), Expect = 1e-05
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 194 LLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFI 242
           L  HF ++G VV + I     +A V F K E A+AA+      M  R +
Sbjct: 24  LTRHFSRYGPVVHVVIDRQRGQALVFFDKVEAAQAAVNE----MKGRKL 68

This subfamily corresponds to the RRM of SHARP, also termed Msx2-interacting protein (MINT), or SPEN homolog, is an estrogen-inducible transcriptional repressor that interacts directly with the nuclear receptor corepressor SMRT, histone deacetylases (HDACs) and components of the NuRD complex. SHARP recruits HDAC activity and binds to the steroid receptor RNA coactivator SRA through four conserved N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), further suppressing SRA-potentiated steroid receptor transcription activity. Thus, SHARP has the capacity to modulate both liganded and nonliganded nuclear receptors. SHARP also has been identified as a component of transcriptional repression complexes in Notch/RBP-Jkappa signaling pathways. In addition to the N-terminal RRMs, SHARP possesses a C-terminal SPOC domain (Spen paralog and ortholog C-terminal domain), which is highly conserved among Spen proteins. . Length = 77

>gnl|CDD|240669 cd12223, RRM_SR140, RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 28/80 (35%), Positives = 34/80 (42%), Gaps = 13/80 (16%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEV--VDIYIPLNSER-------AFVQFSKREEAEAA 229
           L+V N+  K    E L   F +FG +  V I  P   E         FV F  R +AE A
Sbjct: 4   LYVGNLNPKVTE-EVLCQEFGRFGPLASVKIMWPRTEEERRRNRNCGFVAFMNRADAERA 62

Query: 230 LKSPDA--VMGNRFIKLWWA 247
           L   D   VMG   +KL W 
Sbjct: 63  LDELDGKDVMGYE-LKLGWG 81

This subgroup corresponds to the RRM of SR140 (also termed U2 snRNP-associated SURP motif-containing protein orU2SURP, or 140 kDa Ser/Arg-rich domain protein) which is a putative splicing factor mainly found in higher eukaryotes. Although it is initially identified as one of the 17S U2 snRNP-associated proteins, the molecular and physiological function of SR140 remains unclear. SR140 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a SWAP/SURP domain that is found in a number of pre-mRNA splicing factors in the middle region, and a C-terminal arginine/serine-rich domain (RS domain). Length = 84

>gnl|CDD|240768 cd12322, RRM2_TDP43, RNA recognition motif 2 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 41.5 bits (98), Expect = 4e-05
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 4/53 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAE 227
           R +FV  +  +    E L  +F +FGEV D+YIP    R  AFV F+  E A+
Sbjct: 1   RKVFVGRLT-EDMTEEDLRQYFSQFGEVTDVYIP-KPFRAFAFVTFADPEVAQ 51

This subfamily corresponds to the RRM2 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 71

>gnl|CDD|240887 cd12441, RRM_Nup53_like, RNA recognition motif in nucleoporin Nup53 and similar proteins

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK 231
             +L  F   G ++++  P  +    +++S R EAE AL 
Sbjct: 15  NLVLREFSSCGTILEVRYPPGANWIHLKYSSRLEAERALS 54

This subfamily corresponds to the RRM domain of nucleoporin Nup53, also termed mitotic phosphoprotein 44 (MP-44), or nuclear pore complex protein Nup53, required for normal cell growth and nuclear morphology in vertebrate. It tightly associates with the nuclear envelope membrane and the nuclear lamina where it interacts with lamin B. It may also interact with a group of nucleoporins including Nup93, Nup155, and Nup205 and play a role in the association of the mitotic checkpoint protein Mad1 with the nuclear pore complex (NPC). The family also includes Saccharomyces cerevisiae Nup53p, an ortholog of vertebrate nucleoporin Nup53. A unique property of yeast Nup53p is that it contains an additional Kap121p-binding domain and interacts specifically with the karyopherin Kap121p, which is involved in the assembly of Nup53p into NPCs. Both, vertebrate Nup35 and yeast Nup53p, contain an atypical RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a C-terminal amphipathic alpha-helix and several FG repeats. This family corresponds to the RRM domain which lacks the conserved residues that typically bind RNA in canonical RRM domains. Length = 73

>gnl|CDD|240896 cd12450, RRM1_NUCLs, RNA recognition motif 1 found in nucleolin-like proteins mainly from plants

 Score = 41.5 bits (98), Expect = 5e-05
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 6/76 (7%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAF-----VQFSKREEAEAALKS 232
           TLFV N+   + + + L   F++ GEVVD+ I  + +        V+F+  E A+ AL+ 
Sbjct: 1   TLFVGNLSWSAEQ-DDLEEFFKECGEVVDVRIAQDDDGRSKGFGHVEFATEEGAQKALEK 59

Query: 233 PDAVMGNRFIKLWWAN 248
               +  R I++  A 
Sbjct: 60  SGEELLGREIRVDLAT 75

This subfamily corresponds to the RRM1 of a group of plant nucleolin-like proteins, including nucleolin 1 (also termed protein nucleolin like 1) and nucleolin 2 (also termed protein nucleolin like 2, or protein parallel like 1). They play roles in the regulation of ribosome synthesis and in the growth and development of plants. Like yeast nucleolin, nucleolin-like proteins possess two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 77

>gnl|CDD|240801 cd12355, RRM_RBM18, RNA recognition motif in eukaryotic RNA-binding protein 18 and similar proteins

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 11/81 (13%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYI------PLNSER---AFVQFSKREEAEA 228
            L++ N+  +      LL  F K+G++           PL  +     FV F  +EEAE 
Sbjct: 1   RLWIGNLDSRLTEFH-LLKLFSKYGKIKKFDFLFHKSGPLKGQPRGYCFVTFETKEEAEK 59

Query: 229 ALKSPD-AVMGNRFIKLWWAN 248
           ALKS +      + + + WA+
Sbjct: 60  ALKSLNGKTALGKKLVVRWAH 80

This subfamily corresponds to the RRM of RBM18, a putative RNA-binding protein containing a well-conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The biological role of RBM18 remains unclear. . Length = 80

>gnl|CDD|240688 cd12242, RRM_SLIRP, RNA recognition motif found in SRA stem-loop-interacting RNA-binding protein (SLIRP) and similar proteins

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 7/60 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV N+P     +E L  +F +FG+V    +P + E        FV FS R+  E AL+
Sbjct: 1   KLFVGNLPWTVGSKE-LKEYFSQFGKVKSCNVPFDKETGLSKGYGFVSFSSRDGLENALQ 59

This subfamily corresponds to the RRM of SLIRP, a widely expressed small steroid receptor RNA activator (SRA) binding protein, which binds to STR7, a functional substructure of SRA. SLIRP is localized predominantly to the mitochondria and plays a key role in modulating several nuclear receptor (NR) pathways. It functions as a co-repressor to repress SRA-mediated nuclear receptor coactivation. It modulates SHARP- and SKIP-mediated co-regulation of NR activity. SLIRP contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is required for SLIRP's corepression activities. . Length = 73

>gnl|CDD|240778 cd12332, RRM1_p54nrb_like, RNA recognition motif 1 in the p54nrb/PSF/PSP1 family

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMG 238
           LFV N+P      E     F K+GEV ++++       F++   R  AE A    D +M 
Sbjct: 4   LFVGNLP-NDITEEEFKELFSKYGEVSEVFLNKEKGFGFIRLDTRTNAEKAKAELDGIMR 62

Query: 239 -NRFIK 243
             R ++
Sbjct: 63  KGRQLR 68

This subfamily corresponds to the RRM1 of the p54nrb/PSF/PSP1 family, including 54 kDa nuclear RNA- and DNA-binding protein (p54nrb or NonO or NMT55), polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF or POMp100), paraspeckle protein 1 (PSP1 or PSPC1), which are ubiquitously expressed and are conserved in vertebrates. p54nrb is a multi-functional protein involved in numerous nuclear processes including transcriptional regulation, splicing, DNA unwinding, nuclear retention of hyperedited double-stranded RNA, viral RNA processing, control of cell proliferation, and circadian rhythm maintenance. PSF is also a multi-functional protein that binds RNA, single-stranded DNA (ssDNA), double-stranded DNA (dsDNA) and many factors, and mediates diverse activities in the cell. PSP1 is a novel nucleolar factor that accumulates within a new nucleoplasmic compartment, termed paraspeckles, and diffusely distributes in the nucleoplasm. The cellular function of PSP1 remains unknown currently. This subfamily also includes some p54nrb/PSF/PSP1 homologs from invertebrate species, such as the Drosophila melanogaster gene no-ontransient A (nonA) encoding puff-specific protein Bj6 (also termed NONA) and Chironomus tentans hrp65 gene encoding protein Hrp65. D. melanogaster NONA is involved in eye development and behavior, and may play a role in circadian rhythm maintenance, similar to vertebrate p54nrb. C. tentans Hrp65 is a component of nuclear fibers associated with ribonucleoprotein particles in transit from the gene to the nuclear pore. All family members contain a DBHS domain (for Drosophila behavior, human splicing), which comprises two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a charged protein-protein interaction module. PSF has an additional large N-terminal domain that differentiates it from other family members. . Length = 71

>gnl|CDD|240795 cd12349, RRM2_SHARP, RNA recognition motif 2 in SMART/HDAC1-associated repressor protein (SHARP) and similar proteins

 Score = 40.8 bits (96), Expect = 8e-05
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 5/60 (8%)

Query: 178 TLFVNNVPLKS---NRREALLSHFQKFGEVVDIYIP-LNSER-AFVQFSKREEAEAALKS 232
            + V N+PL+S   + ++ L   F+K G+V  + +    SER A V F K E+AE AL+ 
Sbjct: 1   GIIVKNLPLRSSDTSLKDGLFHEFKKHGKVTSVKVHGTGSERYAIVFFRKPEDAEKALEV 60

This subfamily corresponds to the RRM2 of SHARP, also termed Msx2-interacting protein (MINT), or SPEN homolog, an estrogen-inducible transcriptional repressor that interacts directly with the nuclear receptor corepressor SMRT, histone deacetylases (HDACs) and components of the NuRD complex. SHARP recruits HDAC activity and binds to the steroid receptor RNA coactivator SRA through four conserved N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), further suppressing SRA-potentiated steroid receptor transcription activity. Thus, SHARP has the capacity to modulate both liganded and nonliganded nuclear receptors. SHARP also has been identified as a component of transcriptional repression complexes in Notch/RBP-Jkappa signaling pathways. In addition to the N-terminal RRMs, SHARP possesses a C-terminal SPOC domain (Spen paralog and ortholog C-terminal domain), which is highly conserved among Spen proteins. . Length = 74

>gnl|CDD|240704 cd12258, RRM2_RBM26_like, RNA recognition motif 2 of vertebrate RNA-binding protein 26 (RBM26) and similar proteins

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 12/73 (16%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
           R+P Q     L V         ++ LL+HF +FGE+ D+ +        + F  R+EAE 
Sbjct: 3   RRPRQ-----LSVTG--FTEEDKDELLAHFAQFGEIEDVEVDEEGLHLVITFKTRKEAEI 55

Query: 229 ALKSPDAVMGNRF 241
           A     AV G RF
Sbjct: 56  A-----AVRGRRF 63

This subfamily corresponds to the RRM2 of RBM26, also known as cutaneous T-cell lymphoma (CTCL) tumor antigen se70-2, which represents a cutaneous lymphoma (CL)-associated antigen. RBM26 contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The RRMs may play some functional roles in RNA-binding or protein-protein interactions. Length = 72

>gnl|CDD|240669 cd12223, RRM_SR140, RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 14/72 (19%)

Query: 482 VLKEHFSSYGDLASVEL----EDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSG 535
           VL + F  +G LASV++     + E           +NC   V+F  R  AERA   L G
Sbjct: 17  VLCQEFGRFGPLASVKIMWPRTEEERRRN-------RNCGF-VAFMNRADAERALDELDG 68

Query: 536 KSWQGHDLQFTW 547
           K   G++L+  W
Sbjct: 69  KDVMGYELKLGW 80

This subgroup corresponds to the RRM of SR140 (also termed U2 snRNP-associated SURP motif-containing protein orU2SURP, or 140 kDa Ser/Arg-rich domain protein) which is a putative splicing factor mainly found in higher eukaryotes. Although it is initially identified as one of the 17S U2 snRNP-associated proteins, the molecular and physiological function of SR140 remains unclear. SR140 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a SWAP/SURP domain that is found in a number of pre-mRNA splicing factors in the middle region, and a C-terminal arginine/serine-rich domain (RS domain). Length = 84

>gnl|CDD|240860 cd12414, RRM2_RBM28_like, RNA recognition motif 2 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 7/75 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKSP 233
           L V N+P K      L   F  FG V ++ IP   +      AFVQF+ + +AE A+K  
Sbjct: 2   LIVRNLPFKC-TEADLKKLFSPFGFVWEVTIPRKPDGKKKGFAFVQFTSKADAEKAIKGV 60

Query: 234 DAVM-GNRFIKLWWA 247
           +      R + + WA
Sbjct: 61  NGKKIKGRPVAVDWA 75

This subfamily corresponds to the RRM2 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 = 76

>gnl|CDD|240877 cd12431, RRM_ALKBH8, RNA recognition motif in alkylated DNA repair protein alkB homolog 8 (ALKBH8) and similar proteins

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 179 LFVNNVPLKSN--RREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL 230
           L V N  L  N   RE LL  F+K+G V D+ +P      FV +S  E+A AA 
Sbjct: 4   LVVANGGL-GNGVSREELLRVFEKYGTVEDLVMPPGKPYCFVSYSSIEDAAAAY 56

This subfamily corresponds to the RRM of ALKBH8, also termed alpha-ketoglutarate-dependent dioxygenase ABH8, or S-adenosyl-L-methionine-dependent tRNA methyltransferase ABH8, expressed in various types of human cancers. It is essential in urothelial carcinoma cell survival mediated by NOX-1-dependent ROS signals. ALKBH8 has also been identified as a tRNA methyltransferase that catalyzes methylation of tRNA to yield 5-methylcarboxymethyl uridine (mcm5U) at the wobble position of the anticodon loop. Thus, ALKBH8 plays a crucial role in the DNA damage survival pathway through a distinct mechanism involving the regulation of tRNA modification. ALKBH8 localizes to the cytoplasm. It contains the characteristic AlkB domain that is composed of a tRNA methyltransferase motif, a motif homologous to the bacterial AlkB DNA/RNA repair enzyme, and a dioxygenase catalytic core domain encompassing cofactor-binding sites for iron and 2-oxoglutarate. In addition, unlike other AlkB homologs, ALKBH8 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal S-adenosylmethionine (SAM)-dependent methyltransferase (MT) domain. . Length = 80

>gnl|CDD|240771 cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP A and hnRNP D subfamilies and similar proteins

 Score = 40.3 bits (95), Expect = 1e-04
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKSPDAVMGNRFI 242
           E+L  +F K+GEVVD  I  +          FV F+     +  L +   V+  R I
Sbjct: 13  ESLREYFSKYGEVVDCVIMKDPITGRSRGFGFVTFADPSSVDKVLAAKPHVLDGREI 69

This subfamily corresponds to the RRM1 in the hnRNP A subfamily which includes hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The hnRNP D subfamily includes hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus, plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this subfamily contain two putative RRMs and a glycine- and tyrosine-rich C-terminus. The family also contains DAZAP1 (Deleted in azoospermia-associated protein 1), RNA-binding protein Musashi homolog Musashi-1, Musashi-2 and similar proteins. They all harbor two RRMs. . Length = 72

>gnl|CDD|240686 cd12240, RRM_NCBP2, RNA recognition motif found in nuclear cap-binding protein subunit 2 (CBP20) and similar proteins

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 8/75 (10%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           L+V N+       E +   F + G++  I + L+          FV++  RE+AE A+K 
Sbjct: 1   LYVGNLS-FYTTEEQIYELFSRCGDIKRIIMGLDRFTKTPCGFCFVEYYTREDAENAVKY 59

Query: 233 PDAVM-GNRFIKLWW 246
            +     +R I++ W
Sbjct: 60  LNGTKLDDRIIRVDW 74

This subfamily corresponds to the RRM of CBP20, also termed nuclear cap-binding protein subunit 2 (NCBP2), or cell proliferation-inducing gene 55 protein, or NCBP-interacting protein 1 (NIP1). CBP20 is the small subunit of the nuclear cap binding complex (CBC), which is a conserved eukaryotic heterodimeric protein complex binding to 5'-capped polymerase II transcripts and plays a central role in the maturation of pre-mRNA and uracil-rich small nuclear RNA (U snRNA). CBP20 is most likely responsible for the binding of capped RNA. It contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and interacts with the second and third domains of CBP80, the large subunit of CBC. . Length = 78

>gnl|CDD|241003 cd12559, RRM_SRSF10, RNA recognition motif in serine/arginine-rich splicing factor 10 (SRSF10) and similar proteins

 Score = 40.3 bits (94), Expect = 2e-04
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 7/63 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SER----AFVQFSKREEAEAALK 231
           +LFV N+     R E L   F ++G +VD+Y+PL+  + R    A+VQF    +AE AL 
Sbjct: 2   SLFVRNIA-DDTRSEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYVQFEDVRDAEDALH 60

Query: 232 SPD 234
           + D
Sbjct: 61  NLD 63

This subgroup corresponds to the RRM of SRSF10, also termed 40 kDa SR-repressor protein (SRrp40), or FUS-interacting serine-arginine-rich protein 1 (FUSIP1), or splicing factor SRp38, or splicing factor, arginine/serine-rich 13A (SFRS13A), or TLS-associated protein with Ser-Arg repeats (TASR). SRSF10 is a serine-arginine (SR) protein that acts as a potent and general splicing repressor when dephosphorylated. It mediates global inhibition of splicing both in M phase of the cell cycle and in response to heat shock. SRSF10 emerges as a modulator of cholesterol homeostasis through the regulation of low-density lipoprotein receptor (LDLR) splicing efficiency. It also regulates cardiac-specific alternative splicing of triadin pre-mRNA and is required for proper Ca2+ handling during embryonic heart development. In contrast, the phosphorylated SRSF10 functions as a sequence-specific splicing activator in the presence of a nuclear cofactor. It activates distal alternative 5' splice site of adenovirus E1A pre-mRNA in vivo. Moreover, SRSF10 strengthens pre-mRNA recognition by U1 and U2 snRNPs. SRSF10 localizes to the nuclear speckles and can shuttle between nucleus and cytoplasm. It contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

>gnl|CDD|240854 cd12408, RRM_eIF3G_like, RNA recognition motif in eukaryotic translation initiation factor 3 subunit G (eIF-3G) and similar proteins

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 7/60 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
           T+ V N+  +    + L   F+ FG +  +Y+  + E       AFV F  RE+AE A++
Sbjct: 1   TIRVTNLS-EDADEDDLRELFRPFGPISRVYLAKDKETGQSRGFAFVTFHTREDAERAIE 59

This subfamily corresponds to the RRM of eIF-3G and similar proteins. eIF-3G, also termed eIF-3 subunit 4, or eIF-3-delta, or eIF3-p42, or eIF3-p44, is the RNA-binding subunit of eIF3, a large multisubunit complex that plays a central role in the initiation of translation by binding to the 40 S ribosomal subunit and promoting the binding of methionyl-tRNAi and mRNA. eIF-3G binds 18 S rRNA and beta-globin mRNA, and therefore appears to be a nonspecific RNA-binding protein. eIF-3G is one of the cytosolic targets and interacts with mature apoptosis-inducing factor (AIF). eIF-3G contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). This family also includes yeast eIF3-p33, a homolog of vertebrate eIF-3G, plays an important role in the initiation phase of protein synthesis in yeast. It binds both, mRNA and rRNA, fragments due to an RRM near its C-terminus. . Length = 77

>gnl|CDD|240912 cd12466, RRM2_AtRSp31_like, RNA recognition motif 2 in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 2/55 (3%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKS 232
           TLFV N    + R   L  HF+ +G++V++ I  N   AFVQ+  +E+A  AL+S
Sbjct: 1   TLFVINFDPINTRTRDLERHFEPYGKLVNVRIRRNF--AFVQYETQEDATKALES 53

This subgroup corresponds to the RRM2 in a family that represents a novel group of arginine/serine (RS) or serine/arginine (SR) splicing factors existing in plants, such as A. thaliana RSp31, RSp35, RSp41 and similar proteins. Like vertebrate RS splicing factors, these proteins function as plant splicing factors and play crucial roles in constitutive and alternative splicing in plants. They all contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at their N-terminus, and an RS domain at their C-terminus. Length = 70

>gnl|CDD|240806 cd12360, RRM_cwf2, RNA recognition motif in yeast pre-mRNA-splicing factor Cwc2 and similar proteins

 Score = 39.6 bits (93), Expect = 3e-04
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 3/56 (5%)

Query: 177 RTLFVNNV---PLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAA 229
           RTL+V  +          E L  HF ++G++ DI +  +   AFV++  R  AE A
Sbjct: 2   RTLYVGGIKAGSALKQIEEILRRHFGEWGDIEDIRVLPSKGIAFVRYKYRASAEFA 57

This subfamily corresponds to the RRM of yeast protein Cwc2, also termed Complexed with CEF1 protein 2, or PRP19-associated complex protein 40 (Ntc40), or synthetic lethal with CLF1 protein 3, one of the components of the Prp19-associated complex [nineteen complex (NTC)] that can bind to RNA. NTC is composed of the scaffold protein Prp19 and a number of associated splicing factors, and plays a crucial role in intron removal during premature mRNA splicing in eukaryotes. Cwc2 functions as an RNA-binding protein that can bind both small nuclear RNAs (snRNAs) and pre-mRNA in vitro. It interacts directly with the U6 snRNA to link the NTC to the spliceosome during pre-mRNA splicing. In the N-terminal half, Cwc2 contains a CCCH-type zinc finger (ZnF domain), a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and an intervening loop, also termed RNA-binding loop or RB loop, between ZnF and RRM, all of which are necessary and sufficient for RNA binding. The ZnF is also responsible for mediating protein-protein interaction. The C-terminal flexible region of Cwc2 interacts with the WD40 domain of Prp19. Length = 78

>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 = 39.5 bits (93), Expect = 3e-04
 Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 7/73 (9%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNSER-----AFVQFSKREEAEAALK 231
            + +  +P  +   + +   F       D I+I  + +      A+V+F+  E+A  AL+
Sbjct: 1   VVRLRGLPFSATEED-IRDFFSGLDIPPDGIHIVYDDDGRPTGEAYVEFASPEDARRALR 59

Query: 232 SPDAVMGNRFIKL 244
             +  MG R+I++
Sbjct: 60  KHNNKMGGRYIEV 72

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|240692 cd12246, RRM1_U1A_like, RNA recognition motif 1 in the U1A/U2B"/SNF protein family

 Score = 39.4 bits (93), Expect = 3e-04
 Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 8/62 (12%)

Query: 178 TLFVNNVPLKSNR---REALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAAL 230
           TL++NN+  K  +   + +L + F +FG V+DI     + +    AFV F   E A  AL
Sbjct: 1   TLYINNLNEKIKKDELKRSLYALFSQFGPVLDIVA-SKTLKMRGQAFVVFKDVESATNAL 59

Query: 231 KS 232
           ++
Sbjct: 60  RA 61

This subfamily corresponds to the RRM1 of U1A/U2B"/SNF protein family which contains Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs), connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. Moreover, U2B" does not require an auxiliary protein for binding to RNA, and its nuclear transport is independent of U2 snRNA binding. . Length = 78

>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 19/60 (31%), Positives = 36/60 (60%), Gaps = 7/60 (11%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           LFV  +P K+   E + + F+++G + ++ I  + +       AFV+FS REEA+ A+++
Sbjct: 2   LFVGQLP-KTATEEDVRALFEEYGNIEEVTIIRDKDTGQSKGCAFVKFSSREEAQKAIEA 60

This subfamily corresponds to the RRM1 and RRM2 domains of the CUGBP1 and ETR-3-like factors (CELF) as well as plant flowering time control protein FCA. CELF, also termed BRUNOL (Bruno-like) proteins, is a family of structurally related RNA-binding proteins involved in regulation of pre-mRNA splicing in the nucleus, and control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also known as BRUNOL-2, CUG-BP1, NAPOR, EDEN-BP), CELF-2 (also known as BRUNOL-3, ETR-3, CUG-BP2, NAPOR-2), CELF-3 (also known as BRUNOL-1, TNRC4, ETR-1, CAGH4, ER DA4), CELF-4 (BRUNOL-4), CELF-5 (BRUNOL-5) and CELF-6 (BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both, sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. This subfamily also includes plant flowering time control protein FCA that functions in the posttranscriptional regulation of transcripts involved in the flowering process. FCA contains two RRMs, and a WW protein interaction domain. . Length = 77

>gnl|CDD|240789 cd12343, RRM1_2_CoAA_like, RNA recognition motif 1 and 2 in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

 Score = 38.7 bits (91), Expect = 4e-04
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 5/64 (7%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA--V 236
           LFV N+P  +   E L + F+K+G V +  +  N    FV   + E+AE A+K+ +    
Sbjct: 2   LFVGNLPDATTSEE-LRALFEKYGTVTECDVVKNY--GFVHMEEEEDAEDAIKALNGYEF 58

Query: 237 MGNR 240
           MG R
Sbjct: 59  MGKR 62

This subfamily corresponds to the RRM in CoAA (also known as RBM14 or PSP2) and RNA-binding protein 4 (RBM4). CoAA is a heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein identified as a nuclear receptor coactivator. It mediates transcriptional coactivation and RNA splicing effects in a promoter-preferential manner, and is enhanced by thyroid hormone receptor-binding protein (TRBP). CoAA contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a TRBP-interacting domain. RBM4 is a ubiquitously expressed splicing factor with two isoforms, RBM4A (also known as Lark homolog) and RBM4B (also known as RBM30), which are very similar in structure and sequence. RBM4 may also function as a translational regulator of stress-associated mRNAs as well as play a role in micro-RNA-mediated gene regulation. RBM4 contains two N-terminal RRMs, a CCHC-type zinc finger, and three alanine-rich regions within their C-terminal regions. This family also includes Drosophila RNA-binding protein lark (Dlark), a homolog of human RBM4. It plays an important role in embryonic development and in the circadian regulation of adult eclosion. Dlark shares high sequence similarity with RBM4 at the N-terminal region. However, Dlark has three proline-rich segments instead of three alanine-rich segments within the C-terminal region. . Length = 66

>gnl|CDD|241004 cd12560, RRM_SRSF12, RNA recognition motif in serine/arginine-rich splicing factor 12 (SRSF12) and similar proteins

 Score = 39.2 bits (91), Expect = 4e-04
 Identities = 23/59 (38%), Positives = 35/59 (59%), Gaps = 7/59 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SER----AFVQFSKREEAEAAL 230
           +LFV NV   + R E L   F ++G +VD+Y+PL+  + R    A++QF    +AE AL
Sbjct: 2   SLFVRNVA-DATRPEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYIQFEDVRDAEDAL 59

This subgroup corresponds to the RRM of SRSF12, also termed 35 kDa SR repressor protein (SRrp35), or splicing factor, arginine/serine-rich 13B (SFRS13B), or splicing factor, arginine/serine-rich 19 (SFRS19). SRSF12 is a serine/arginine (SR) protein-like alternative splicing regulator that antagonizes authentic SR proteins in the modulation of alternative 5' splice site choice. For instance, it activates distal alternative 5' splice site of the adenovirus E1A pre-mRNA in vivo. SRSF12 contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

>gnl|CDD|240828 cd12382, RRM_RBMX_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein G (hnRNP G), Y chromosome RNA recognition motif 1 (hRBMY), testis-specific heterogeneous nuclear ribonucleoprotein G-T (hnRNP G-T) and similar proteins

 Score = 38.4 bits (90), Expect = 7e-04
 Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 7/60 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV+ +  ++  +E L + F KFG V ++ +  + E        FV F   E+A+AA++
Sbjct: 3   KLFVSGLSTRTTEKE-LEALFSKFGRVEEVLLMKDPETGESRGFGFVTFESVEDADAAIR 61

This subfamily corresponds to the RRM domain of hnRNP G, also termed glycoprotein p43 or RBMX, an RNA-binding motif protein located on the X chromosome. It is expressed ubiquitously and has been implicated in the splicing control of several pre-mRNAs. Moreover, hnRNP G may function as a regulator of transcription for SREBP-1c and GnRH1. Research has shown that hnRNP G may also act as a tumor-suppressor since it upregulates the Txnip gene and promotes the fidelity of DNA end-joining activity. In addition, hnRNP G appears to play a critical role in proper neural development of zebrafish and frog embryos. The family also includes several paralogs of hnRNP G, such as hRBMY and hnRNP G-T (also termed RNA-binding motif protein, X-linked-like-2). Both, hRBMY and hnRNP G-T, are exclusively expressed in testis and critical for male fertility. Like hnRNP G, hRBMY and hnRNP G-T interact with factors implicated in the regulation of pre-mRNA splicing, such as hTra2-beta1 and T-STAR. Although members in this family share a high conserved N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), they appear to recognize different RNA targets. For instance, hRBMY interacts specifically with a stem-loop structure in which the loop is formed by the sequence CA/UCAA. In contrast, hnRNP G associates with single stranded RNA sequences containing a CCA/C motif. In addition to the RRM, hnRNP G contains a nascent transcripts targeting domain (NTD) in the middle region and a novel auxiliary RNA-binding domain (RBD) in its C-terminal region. The C-terminal RBD exhibits distinct RNA binding specificity, and would play a critical role in the regulation of alternative splicing by hnRNP G. . Length = 80

>gnl|CDD|240840 cd12394, RRM1_RBM34, RNA recognition motif 1 in RNA-binding protein 34 (RBM34) and similar proteins

 Score = 38.8 bits (91), Expect = 7e-04
 Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 24/78 (30%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYI---PLNSER------------------ 215
           RT+FV N+PL + +++ L   F++FG +  +     P+  ++                  
Sbjct: 1   RTVFVGNLPLTTKKKD-LKKLFKQFGPIESVRFRSVPVKEKKLPKKVAAIKKKFHDKKDN 59

Query: 216 --AFVQFSKREEAEAALK 231
             A+V F + E AE ALK
Sbjct: 60  VNAYVVFKEEESAEKALK 77

This subfamily corresponds to the RRM1 of RBM34, a putative RNA-binding protein containing two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Although the function of RBM34 remains unclear currently, its RRM domains may participate in mRNA processing. RBM34 may act as an mRNA processing-related protein. . Length = 91

>gnl|CDD|240724 cd12278, RRM_eIF3B, RNA recognition motif in eukaryotic translation initiation factor 3 subunit B (eIF-3B) and similar proteins

 Score = 38.3 bits (90), Expect = 7e-04
 Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 7/49 (14%)

Query: 191 REALLSHFQKFG--EVVDIYIPLNSER-----AFVQFSKREEAEAALKS 232
           ++ L   F KFG  ++V IY+P++        AFV+F+  EEA+ A+K+
Sbjct: 21  KKVLRKIFSKFGVGKIVGIYMPVDETGKTKGYAFVEFATPEEAKEAVKA 69

This subfamily corresponds to the RRM domain in eukaryotic translation initiation factor 3 (eIF-3), a large multisubunit complex that plays a central role in the initiation of translation by binding to the 40 S ribosomal subunit and promoting the binding of methionyl-tRNAi and mRNA. eIF-3B, also termed eIF-3 subunit 9, or Prt1 homolog, eIF-3-eta, eIF-3 p110, or eIF-3 p116, is the major scaffolding subunit of eIF-3. It interacts with eIF-3 subunits A, G, I, and J. eIF-3B contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is involved in the interaction with eIF-3J. The interaction between eIF-3B and eIF-3J is crucial for the eIF-3 recruitment to the 40 S ribosomal subunit. eIF-3B also binds directly to domain III of the internal ribosome-entry site (IRES) element of hepatitis-C virus (HCV) RNA through its N-terminal RRM, which may play a critical role in both cap-dependent and cap-independent translation. Additional research has shown that eIF-3B may function as an oncogene in glioma cells and can be served as a potential therapeutic target for anti-glioma therapy. This family also includes the yeast homolog of eIF-3 subunit B (eIF-3B, also termed PRT1 or eIF-3 p90) that interacts with the yeast homologs of eIF-3 subunits A(TIF32), G(TIF35), I(TIF34), J(HCR1), and E(Pci8). In yeast, eIF-3B (PRT1) contains an N-terminal RRM that is directly involved in the interaction with eIF-3A (TIF32) and eIF-3J (HCR1). In contrast to its human homolog, yeast eIF-3B (PRT1) may have potential to bind its total RNA through its RRM domain. . Length = 84

>gnl|CDD|240990 cd12546, RRM_RBM43, RNA recognition motif in vertebrate RNA-binding protein 43 (RBM43)

 Score = 38.1 bits (89), Expect = 0.001
 Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 10/64 (15%)

Query: 177 RTLFVNNVPLKSNRREA----LLSHFQK----FGEVVDIYIPLN-SERAFVQFSKREEAE 227
           RT+ V+ +P       A    L  HFQ+     G+V ++  P      A+V F + E+AE
Sbjct: 1   RTVVVSGLP-DGVFDGALKDKLTIHFQRRKNGGGDVENVTYPTRTKGVAYVTFEEEEDAE 59

Query: 228 AALK 231
             LK
Sbjct: 60  NVLK 63

This subgroup corresponds to the RRM of RBM43, a putative RNA-binding protein containing one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Although its biological function remains unclear, RBM43 shows high sequence homology to poly [ADP-ribose] polymerase 10 (PARP-10), which is a novel oncoprotein c-Myc-interacting protein with poly(ADP-ribose) polymerase activity. . Length = 77

>gnl|CDD|240803 cd12357, RRM_PPARGC1A_like, RNA recognition motif in the peroxisome proliferator-activated receptor gamma coactivator 1A (PGC-1alpha) family of regulated coactivators

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 4/57 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---AFVQFSKREEAEAAL 230
           R ++V  +P+ + R E L   FQ FGE+ +I +    +     FV +    +A  A+
Sbjct: 3   RVIYVGKIPIDTTRSE-LRQRFQPFGEIEEITLHFRDDGDNYGFVTYRYACDAFRAI 58

This subfamily corresponds to the RRM of PGC-1alpha, PGC-1beta, and PGC-1-related coactivator (PRC), which serve as mediators between environmental or endogenous signals and the transcriptional machinery governing mitochondrial biogenesis. They play an important integrative role in the control of respiratory gene expression through interacting with a number of transcription factors, such as NRF-1, NRF-2, ERR, CREB and YY1. All family members are multi-domain proteins containing the N-terminal activation domain, an LXXLL coactivator signature, a tetrapeptide motif (DHDY) responsible for HCF binding, and an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). In contrast to PGC-1alpha and PRC, PGC-1beta possesses two glutamic/aspartic acid-rich acidic domains, but lacks most of the arginine/serine (SR)-rich domain that is responsible for the regulation of RNA processing. . Length = 89

>gnl|CDD|240841 cd12395, RRM2_RBM34, RNA recognition motif 2 in RNA-binding protein 34 (RBM34) and similar proteins

 Score = 37.1 bits (87), Expect = 0.001
 Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
           ++FV N+P      E L  HF+  G+V  + I  + +        +V F  ++    ALK
Sbjct: 1   SVFVGNLPFDIEE-EELRKHFEDCGDVEAVRIVRDRKTGIGKGFGYVLFKTKDSVALALK 59

Query: 232 SPDAVMGNRFIKL 244
                +  R I++
Sbjct: 60  LNGIKLKGRKIRV 72

This subfamily corresponds to the RRM2 of RBM34, a putative RNA-binding protein containing two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Although the function of RBM34 remains unclear currently, its RRM domains may participate in mRNA processing. RBM34 may act as an mRNA processing-related protein. . Length = 73

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

 Score = 36.9 bits (86), Expect = 0.002
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 10/64 (15%)

Query: 483 LKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQG 540
           L+E FS +G++ SV +            D        V F +   AE+A   L+GK   G
Sbjct: 15  LRELFSKFGEIESVRI--------VRDKDGKSKGFAFVEFESPEDAEKALEALNGKELDG 66

Query: 541 HDLQ 544
             L+
Sbjct: 67  RKLK 70

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|240837 cd12391, RRM1_SART3, RNA recognition motif 1 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 36.9 bits (86), Expect = 0.002
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 6/68 (8%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKS 232
           T+FV+N+       E L   F K GE+ D+ +  N +      A+V+F   E  + ALK 
Sbjct: 1   TVFVSNLDYSVPEDE-LRKLFSKCGEITDVRLVKNYKGKSKGYAYVEFENEESVQEALKL 59

Query: 233 PDAVMGNR 240
              ++  R
Sbjct: 60  DRELIKGR 67

This subfamily corresponds to the RRM1 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 72

>gnl|CDD|240725 cd12279, RRM_TUT1, RNA recognition motif in speckle targeted PIP5K1A-regulated poly(A) polymerase (Star-PAP) and similar proteins

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 6/62 (9%)

Query: 175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---AFVQFSKREEAEAALK 231
           A R++FV+    +    E L+ +F  FG V+++ +  + ++   A V+F  +E  +  L 
Sbjct: 1   AERSVFVSGFK-RGTSEEQLMDYFSAFGPVMNVIM--DKDKGVYAIVEFDSKEGVDKVLS 57

Query: 232 SP 233
            P
Sbjct: 58  EP 59

This subfamily corresponds to the RRM of Star-PAP, also termed RNA-binding motif protein 21 (RBM21), which is a ubiquitously expressed U6 snRNA-specific terminal uridylyltransferase (U6-TUTase) essential for cell proliferation. Although it belongs to the well-characterized poly(A) polymerase protein superfamily, Star-PAP is highly divergent from both, the poly(A) polymerase (PAP) and the terminal uridylyl transferase (TUTase), identified within the editing complexes of trypanosomes. Star-PAP predominantly localizes at nuclear speckles and catalyzes RNA-modifying nucleotidyl transferase reactions. It functions in mRNA biosynthesis and may be regulated by phosphoinositides. It binds to glutathione S-transferase (GST)-PIPKIalpha. Star-PAP preferentially uses ATP as a nucleotide substrate and possesses PAP activity that is stimulated by PtdIns4,5P2. It contains an N-terminal C2H2-type zinc finger motif followed by an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a split PAP domain linked by a proline-rich region, a PAP catalytic and core domain, a PAP-associated domain, an RS repeat, and a nuclear localization signal (NLS). . Length = 74

>gnl|CDD|240868 cd12422, RRM2_PTBP1_hnRNPL_like, RNA recognition motif in polypyrimidine tract-binding protein 1 (PTB or hnRNP I), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), and similar proteins

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 6/53 (11%)

Query: 192 EALLSHFQKFGEV--VDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFI 242
           + L   F  +G V  + I+      +A VQF   E AE A K     +  R I
Sbjct: 16  DVLHQVFSPYGAVEKILIFEKNTGVQALVQFDSVESAENAKK----ALNGRNI 64

This subfamily corresponds to the RRM2 of polypyrimidine tract-binding protein 1 (PTB or hnRNP I), polypyrimidine tract-binding protein 2 (PTBP2 or nPTB), regulator of differentiation 1 (Rod1), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), heterogeneous nuclear ribonucleoprotein L-like (hnRNP-LL), polypyrimidine tract-binding protein homolog 3 (PTBPH3), polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2), and similar proteins, and RRM3 of PTBPH1 and PTBPH2. PTB is an important negative regulator of alternative splicing in mammalian cells and also functions at several other aspects of mRNA metabolism, including mRNA localization, stabilization, polyadenylation, and translation. PTBP2 is highly homologous to PTB and is perhaps specific to the vertebrates. Unlike PTB, PTBP2 is enriched in the brain and in some neural cell lines. It binds more stably to the downstream control sequence (DCS) RNA than PTB does but is a weaker repressor of splicing in vitro. PTBP2 also greatly enhances the binding of two other proteins, heterogeneous nuclear ribonucleoprotein (hnRNP) H and KH-type splicing-regulatory protein (KSRP), to the DCS RNA. The binding properties of PTBP2 and its reduced inhibitory activity on splicing imply roles in controlling the assembly of other splicing-regulatory proteins. Rod1 is a mammalian polypyrimidine tract binding protein (PTB) homolog of a regulator of differentiation in the fission yeast Schizosaccharomyces pombe, where the nrd1 gene encodes an RNA binding protein negatively regulates the onset of differentiation. ROD1 is predominantly expressed in hematopoietic cells or organs. It might play a role controlling differentiation in mammals. hnRNP-L is a higher eukaryotic specific subunit of human KMT3a (also known as HYPB or hSet2) complex required for histone H3 Lys-36 trimethylation activity. It plays both, nuclear and cytoplasmic, roles in mRNA export of intronless genes, IRES-mediated translation, mRNA stability, and splicing. hnRNP-LL protein plays a critical and unique role in the signal-induced regulation of CD45 and acts as a global regulator of alternative splicing in activated T cells. This family also includes polypyrimidine tract binding protein homolog 3 (PTBPH3) found in plant. Although its biological roles remain unclear, PTBPH3 shows significant sequence similarity to other family members, all of which contain four RNA recognition motifs (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Although their biological roles remain unclear, both PTBPH1 and PTBPH2 show significant sequence similarity to PTB. However, in contrast to PTB, they have three RRMs. . Length = 85

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

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 8/71 (11%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           LFV N+P  S + + L   F KFGE+ ++++ ++ +       A+V F   E+A  A K 
Sbjct: 5   LFVRNLPY-SCKEDDLEKLFSKFGELSEVHVAIDKKSGKSKGFAYVLFLDPEDAVKAYKE 63

Query: 233 PDA-VMGNRFI 242
            D  V   R I
Sbjct: 64  LDGKVFQGRLI 74

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|240764 cd12318, RRM5_RBM19_like, RNA recognition motif 5 in RNA-binding protein 19 (RBM19 or RBD-1) and similar proteins

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 12/66 (18%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYI-----------PLNSERAFVQFSKREE 225
            TLFV N+  K+   E L  HF+K G V  + I            L+    FV+F  +E 
Sbjct: 1   TTLFVKNLNFKTTE-ETLKKHFEKCGGVRSVTIAKKKDPKGPGKLLSMGYGFVEFKSKEA 59

Query: 226 AEAALK 231
           A+ ALK
Sbjct: 60  AQKALK 65

This subfamily corresponds to the RRM5 of RBM19 and RRM4 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). . Length = 82

>gnl|CDD|241081 cd12637, RRM2_FCA, RNA recognition motif 2 in plant flowering time control protein FCA and similar proteins

 Score = 36.4 bits (84), Expect = 0.004
 Identities = 20/63 (31%), Positives = 36/63 (57%), Gaps = 6/63 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKSP 233
           LFV  +  ++  +E +   F  +G V DIY+  +  +     AFV++S +E A+AA+K+ 
Sbjct: 2   LFVGCLNKQATEKE-VEEVFSPYGRVEDIYMMRDEMKQSRGCAFVKYSSKEMAQAAIKAL 60

Query: 234 DAV 236
           + V
Sbjct: 61  NGV 63

This subgroup corresponds to the RRM2 of FCA, a gene controlling flowering time in Arabidopsis, which encodes a flowering time control protein that functions in the posttranscriptional regulation of transcripts involved in the flowering process. The flowering time control protein FCA contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNP (ribonucleoprotein domains), and a WW protein interaction domain. . Length = 80

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	634
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	100.0
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.97
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.94
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.94
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.92
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.92
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.92
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.91
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.9
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.9
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.88
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.88
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.88
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.87
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.86
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.82
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.82
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.81
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.78
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.77
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.75
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.74
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.74
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.73
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.7
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.68
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.66
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.64
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.64
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.62
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.6
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.52
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.45
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	99.42
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.4
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.35
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.34
KOG2135	526	consensus Proteins containing the RNA recognition	99.33
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.29
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.27
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.27
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.22
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.22
PLN03120	260	nucleic acid binding protein; Provisional	99.21
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.2
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.18
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.17
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.14
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.13
KOG0122	270	consensus Translation initiation factor 3, subunit	99.13
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.13
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.12
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.1
smart00362	72	RRM_2 RNA recognition motif.	99.08
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.07
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.07
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.04
PLN03213	759	repressor of silencing 3; Provisional	99.0
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.97
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.96
PLN03121	243	nucleic acid binding protein; Provisional	98.96
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	98.94
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.91
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.91
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	98.9
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.88
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.88
smart00360	71	RRM RNA recognition motif.	98.88
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.87
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.87
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.76
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.75
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.74
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.73
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.7
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.7
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	98.69
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.68
PLN03120	260	nucleic acid binding protein; Provisional	98.68
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.63
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.63
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.62
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.62
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	98.58
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.56
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.54
KOG0226	290	consensus RNA-binding proteins [General function p	98.54
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.53
smart00361	70	RRM_1 RNA recognition motif.	98.53
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.52
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.5
KOG0122	270	consensus Translation initiation factor 3, subunit	98.49
smart00361	70	RRM_1 RNA recognition motif.	98.48
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.45
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.45
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.42
PLN03121	243	nucleic acid binding protein; Provisional	98.37
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.36
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.32
PLN03213	759	repressor of silencing 3; Provisional	98.31
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.28
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.27
smart00360	71	RRM RNA recognition motif.	98.25
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.24
smart00362	72	RRM_2 RNA recognition motif.	98.22
KOG0151	877	consensus Predicted splicing regulator, contains R	98.22
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.2
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.2
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.19
KOG4210	285	consensus Nuclear localization sequence binding pr	98.19
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.18
KOG0226	290	consensus RNA-binding proteins [General function p	98.17
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	98.13
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.09
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.03
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.03
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.99
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	97.95
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.95
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	97.89
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.86
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	97.86
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.84
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.81
KOG0151	877	consensus Predicted splicing regulator, contains R	97.8
KOG2135	526	consensus Proteins containing the RNA recognition	97.79
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	97.78
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	97.73
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	97.7
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	97.67
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	97.64
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.63
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.61
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.6
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.56
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	97.49
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	97.41
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	97.32
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.25
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.2
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.14
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	97.11
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.99
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.97
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	96.74
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.73
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	96.69
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	96.64
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	96.45
KOG3152	278	consensus TBP-binding protein, activator of basal	96.16
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	96.07
KOG1855	484	consensus Predicted RNA-binding protein [General f	96.06
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.02
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	95.65
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	95.51
KOG1996	378	consensus mRNA splicing factor [RNA processing and	95.48
KOG1995	351	consensus Conserved Zn-finger protein [General fun	95.34
KOG4660	549	consensus Protein Mei2, essential for commitment t	95.15
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.13
KOG2314	698	consensus Translation initiation factor 3, subunit	94.85
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	94.85
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	94.6
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	94.39
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	94.39
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	93.82
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	93.47
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	93.29
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	93.16
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	93.04
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	92.91
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.86
KOG2068	327	consensus MOT2 transcription factor [Transcription	92.51
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	91.97
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	91.47
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	91.06
KOG2314	698	consensus Translation initiation factor 3, subunit	90.64
KOG2891	445	consensus Surface glycoprotein [General function p	90.36
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	90.2
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	89.97
KOG1996	378	consensus mRNA splicing factor [RNA processing and	89.57
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	88.68
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	88.6
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	87.24
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	86.95
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	86.86
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	86.79
KOG2591	684	consensus c-Mpl binding protein, contains La domai	85.05
PF10567	309	Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IP	83.48
KOG4210	285	consensus Nuclear localization sequence binding pr	83.36
KOG3088	313	consensus Secretory carrier membrane protein [Intr	80.1

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

Probab=100.00  E-value=2.4e-33  Score=279.58  Aligned_cols=188  Identities=17%  Similarity=0.293  Sum_probs=157.5

Q ss_pred             CCCc-cccccCCCCC-CccccccCCCCCCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCH
Q 048615           48 NDET-ESLLNEDSSN-NHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETK  125 (634)
Q Consensus        48 ~~~~-~~~~~~~~~~-~~h~~~~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~  125 (634)
                      +|.+ +..+++++++ |||+||+|+.+        .+....+.+.+..||+|.+.++++|+.+.   +++|||||.|-++
T Consensus        46 ~wa~~p~nQsk~t~~~hfhvfvgdls~--------eI~~e~lr~aF~pFGevS~akvirD~~T~---KsKGYgFVSf~~k  114 (321)
T KOG0148|consen   46 NWATAPGNQSKPTSNQHFHVFVGDLSP--------EIDNEKLREAFAPFGEVSDAKVIRDMNTG---KSKGYGFVSFPNK  114 (321)
T ss_pred             ccccCcccCCCCccccceeEEehhcch--------hcchHHHHHHhccccccccceEeecccCC---cccceeEEeccch
Confidence            8988 5556655555 99999999974        12245566678888888888888777654   5699999999999


Q ss_pred             HHH-HHHhccCCceeCCEEEEEccCcccCCCCccc--cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCC
Q 048615          126 EDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK--AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFG  202 (634)
Q Consensus       126 e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~--~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG  202 (634)
                      ++| +||..|||++|++|.||.+|+..|......+  .+.+.-    ..+.+.+|+||||||+.. ++++.||++|+.||
T Consensus       115 ~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~----NQssp~NtsVY~G~I~~~-lte~~mr~~Fs~fG  189 (321)
T KOG0148|consen  115 EDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVY----NQSSPDNTSVYVGNIASG-LTEDLMRQTFSPFG  189 (321)
T ss_pred             HHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHh----ccCCCCCceEEeCCcCcc-ccHHHHHHhcccCC
Confidence            999 9999999999999999999999887432222  222221    235567999999999995 99999999999999


Q ss_pred             CEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          203 EVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       203 ~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      .|.+|||.++++|+||.|.++|.|.+||..+|+ .|+|+.+||+|.|...
T Consensus       190 ~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~  239 (321)
T KOG0148|consen  190 PIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGD  239 (321)
T ss_pred             cceEEEEecccceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCC
Confidence            999999999999999999999999999999999 8999999999998643

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.97  E-value=2.1e-28  Score=260.92  Aligned_cols=151  Identities=23%  Similarity=0.312  Sum_probs=132.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++++..+|.++|+|..+++++++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.+....    
T Consensus        11 Lp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~----   86 (352)
T TIGR01661        11 LPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDS----   86 (352)
T ss_pred             CCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccc----
Confidence            445678899999999999999999999888888999999999999999 999999999999999999988654311    


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~l  233 (634)
                                    ...++|||+|||.. +++++|+.+|++||.|..++++.+      ++||||+|.+.++|..|++.|
T Consensus        87 --------------~~~~~l~v~~l~~~-~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l  151 (352)
T TIGR01661        87 --------------IKGANLYVSGLPKT-MTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTL  151 (352)
T ss_pred             --------------cccceEEECCcccc-CCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHh
Confidence                          12468999999995 999999999999999999998875      369999999999999999999


Q ss_pred             CC-ccCC--eEEEEEeecCC
Q 048615          234 DA-VMGN--RFIKLWWANRD  250 (634)
Q Consensus       234 ng-~l~g--R~IkV~wak~~  250 (634)
                      +| .+.|  +.|+|.|+...
T Consensus       152 ~g~~~~g~~~~i~v~~a~~~  171 (352)
T TIGR01661       152 NGTTPSGCTEPITVKFANNP  171 (352)
T ss_pred             CCCccCCCceeEEEEECCCC
Confidence            99 5655  78999998644

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

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

Probab=99.94  E-value=3.1e-25  Score=249.80  Aligned_cols=166  Identities=16%  Similarity=0.249  Sum_probs=137.0

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM  154 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~  154 (634)
                      +|+| +....+++.++.+|.++|.|..++++.++.+++++|||||+|.+.++| +||..|||..|.||+|+|.+......
T Consensus       111 fVGn-Lp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~  189 (612)
T TIGR01645       111 YVGS-ISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQ  189 (612)
T ss_pred             EEcC-CCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccccccc
Confidence            4444 455678888999999999999888888888888999999999999999 99999999999999999986543321


Q ss_pred             CCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHH
Q 048615          155 DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEA  228 (634)
Q Consensus       155 ~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~  228 (634)
                      ...   ..+..    .......++|||+|||++ +++++|+++|++||.|.+|+|.++      +|||||+|.+.++|.+
T Consensus       190 a~~---~~~~~----~~~~~~~~rLfVgnLp~~-vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~k  261 (612)
T TIGR01645       190 AQP---IIDMV----QEEAKKFNRIYVASVHPD-LSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSE  261 (612)
T ss_pred             ccc---ccccc----cccccccceEEeecCCCC-CCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHH
Confidence            111   00000    011123579999999996 999999999999999999999875      4799999999999999


Q ss_pred             HHHcCCC-ccCCeEEEEEeecCC
Q 048615          229 ALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       229 Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      |+..||+ .|+|+.|+|.|+...
T Consensus       262 AI~amNg~elgGr~LrV~kAi~p  284 (612)
T TIGR01645       262 AIASMNLFDLGGQYLRVGKCVTP  284 (612)
T ss_pred             HHHHhCCCeeCCeEEEEEecCCC
Confidence            9999999 899999999999753

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.

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

Probab=99.94  E-value=6.2e-26  Score=257.44  Aligned_cols=151  Identities=17%  Similarity=0.269  Sum_probs=130.0

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcccc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      ....+++.++.+|.++|.|..+++++++.+++++|||||+|.+.++| +||..||+..|.|++|+|.|+......   + 
T Consensus         9 p~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~---~-   84 (562)
T TIGR01628         9 DPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSL---R-   84 (562)
T ss_pred             CCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccccc---c-
Confidence            34567888999999999988888888888778899999999999999 999999999999999999987532210   0 


Q ss_pred             ccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC
Q 048615          161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       161 ~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng  235 (634)
                                  ....++|||+|||.+ +++++|+++|++||.|..|+|..+     ++||||+|.+.++|.+|++.++|
T Consensus        85 ------------~~~~~~vfV~nLp~~-~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng  151 (562)
T TIGR01628        85 ------------RSGVGNIFVKNLDKS-VDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNG  151 (562)
T ss_pred             ------------ccCCCceEEcCCCcc-CCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcc
Confidence                        011468999999996 999999999999999999999875     47999999999999999999999


Q ss_pred             -ccCCeEEEEEeecC
Q 048615          236 -VMGNRFIKLWWANR  249 (634)
Q Consensus       236 -~l~gR~IkV~wak~  249 (634)
                       .++|+.|.|.+...
T Consensus       152 ~~~~~~~i~v~~~~~  166 (562)
T TIGR01628       152 MLLNDKEVYVGRFIK  166 (562)
T ss_pred             cEecCceEEEecccc
Confidence             79999999987643

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

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

Probab=99.92  E-value=2e-23  Score=230.75  Aligned_cols=165  Identities=21%  Similarity=0.326  Sum_probs=133.5

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....++..+..+|..+|.|..+..++++.++.++|||||+|.+.++| +|| .|+|..|.|++|.|.++....
T Consensus        92 l~V~n-lp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~~~~~  169 (457)
T TIGR01622        92 VFVLQ-LALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSSQAEK  169 (457)
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeecchhh
Confidence            34444 444567788889999999999888888888888899999999999999 888 599999999999998765432


Q ss_pred             CCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHH
Q 048615          154 MDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAE  227 (634)
Q Consensus       154 ~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~  227 (634)
                      ......  ...    .....+..++|||+|||+. +++++|+++|++||.|..|.|+.+      ++||||+|.+.++|.
T Consensus       170 ~~~~~~--~~~----~~~~~p~~~~l~v~nl~~~-~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~  242 (457)
T TIGR01622       170 NRAAKA--ATH----QPGDIPNFLKLYVGNLHFN-ITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAK  242 (457)
T ss_pred             hhhhhc--ccc----cCCCCCCCCEEEEcCCCCC-CCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHH
Confidence            111000  000    0001123689999999995 999999999999999999999865      369999999999999


Q ss_pred             HHHHcCCC-ccCCeEEEEEeec
Q 048615          228 AALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       228 ~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +|+..|+| .|.|+.|+|.|+.
T Consensus       243 ~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       243 EALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             HHHHhcCCcEECCEEEEEEEcc
Confidence            99999999 8999999999997

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.

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

Probab=99.92  E-value=2.5e-23  Score=232.32  Aligned_cols=158  Identities=15%  Similarity=0.167  Sum_probs=123.0

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhc--cCCceeCCEEEEEccCcccCCCCc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPS--LQGSYRRGKRIIEGDAIQKNMDPS  157 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~--mnG~~l~GR~I~V~~a~~k~~~~~  157 (634)
                      +....+++++..+|.++|.|..+..++.      +|||||+|.+.++| +||..  +|+..|.|++|+|.++..+.....
T Consensus        10 Lp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~   83 (481)
T TIGR01649        10 LPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRD   83 (481)
T ss_pred             CCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccC
Confidence            3345677778888888888777766642      68999999999999 99976  588999999999999876532111


Q ss_pred             cccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCC--eEEEEeCCHHHHHHHHHcCCC
Q 048615          158 TKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--RAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       158 ~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg--~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ..  .+.  .  ........+|||+||++ ++++++|+++|+.||.|.+|.|+++++  +|||+|.+.++|.+|++.|||
T Consensus        84 ~~--~~~--~--~~~~~~~~~v~v~nl~~-~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng  156 (481)
T TIGR01649        84 GN--SDF--D--SAGPNKVLRVIVENPMY-PITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNG  156 (481)
T ss_pred             CC--Ccc--c--CCCCCceEEEEEcCCCC-CCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcC
Confidence            00  000  0  00111235899999999 599999999999999999999988764  899999999999999999999


Q ss_pred             -ccCC--eEEEEEeecCCC
Q 048615          236 -VMGN--RFIKLWWANRDS  251 (634)
Q Consensus       236 -~l~g--R~IkV~wak~~~  251 (634)
                       .|.|  +.|+|.|++...
T Consensus       157 ~~i~~~~~~l~v~~sk~~~  175 (481)
T TIGR01649       157 ADIYNGCCTLKIEYAKPTR  175 (481)
T ss_pred             CcccCCceEEEEEEecCCC
Confidence             5643  689999998643

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).

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

Probab=99.92  E-value=2.8e-24  Score=241.53  Aligned_cols=142  Identities=21%  Similarity=0.291  Sum_probs=118.6

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeC-CEEEEEccCcccCCCCcc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRR-GKRIIEGDAIQKNMDPST  158 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~-GR~I~V~~a~~k~~~~~~  158 (634)
                      +....+++.+..+|.++|.|..++++++ .++.++|||||+|.+.++| +||..|||..+. ||.|.|.++.        
T Consensus        66 Lp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~--------  136 (578)
T TIGR01648        66 IPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISV--------  136 (578)
T ss_pred             CCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccc--------
Confidence            4456788899999999999888888888 5668899999999999999 999999999985 7777776432        


Q ss_pred             ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEec-------CCCeEEEEeCCHHHHHHHH
Q 048615          159 KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIPL-------NSERAFVQFSKREEAEAAL  230 (634)
Q Consensus       159 ~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~~-------dkg~AFV~F~s~e~A~~Ai  230 (634)
                                      .+++|||+|||.. +++++|.+.|++|+. |+++.+..       .++||||+|.++++|..|+
T Consensus       137 ----------------~~~rLFVgNLP~~-~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~Ai  199 (578)
T TIGR01648       137 ----------------DNCRLFVGGIPKN-KKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMAR  199 (578)
T ss_pred             ----------------cCceeEeecCCcc-hhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHH
Confidence                            1579999999995 999999999999974 44444432       3579999999999999999


Q ss_pred             HcCCC---ccCCeEEEEEeec
Q 048615          231 KSPDA---VMGNRFIKLWWAN  248 (634)
Q Consensus       231 ~~lng---~l~gR~IkV~wak  248 (634)
                      +.++.   .+.|+.|+|.|+.
T Consensus       200 rkL~~gki~l~Gr~I~VdwA~  220 (578)
T TIGR01648       200 RKLMPGRIQLWGHVIAVDWAE  220 (578)
T ss_pred             HHhhccceEecCceEEEEeec
Confidence            98863   4789999999985

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.

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

Probab=99.91  E-value=2.1e-22  Score=224.90  Aligned_cols=166  Identities=14%  Similarity=0.154  Sum_probs=125.8

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCC--EEEEEccCcccCCC--
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRG--KRIIEGDAIQKNMD--  155 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~G--R~I~V~~a~~k~~~--  155 (634)
                      +....+++.++.+|+++|.|..+.+++++ +   .|||||+|.+.++| +|+..|||..|.|  +.|+|.++......  
T Consensus       104 l~~~vt~~~L~~~F~~~G~V~~v~i~~~~-~---~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~~l~v~  179 (481)
T TIGR01649       104 PMYPITLDVLYQIFNPYGKVLRIVTFTKN-N---VFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKPTRLNVK  179 (481)
T ss_pred             CCCCCCHHHHHHHHhccCCEEEEEEEecC-C---ceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecCCCceeE
Confidence            34456778888889999988877665543 2   47999999999999 9999999999965  47888887653310  


Q ss_pred             -----------Cccc-------------ccc----------------cc----------c----------c-------cc
Q 048615          156 -----------PSTK-------------AQN----------------DH----------M----------R-------NI  168 (634)
Q Consensus       156 -----------~~~~-------------~~~----------------d~----------~----------~-------~~  168 (634)
                                 +...             ...                ..          .          .       ..
T Consensus       180 ~~~~~s~dyt~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (481)
T TIGR01649       180 YNDDDSRDYTNPDLPGRRDPGLDQTHRQRQPALLGQHPSSYGHDGYSSHGGPLAPLAGGDRMGPPHGPPSRYRPAYEAAP  259 (481)
T ss_pred             ecccCCCCCcCCCCCCCCCCCcCccccccccccccCCCccCCCcccccCCCCCCcccccccCCCcccCCCCCcccccccc
Confidence                       0000             000                00          0          0       00


Q ss_pred             --------CCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccC
Q 048615          169 --------RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMG  238 (634)
Q Consensus       169 --------~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~  238 (634)
                              .....+++++|||+|||++.+++++|+++|+.||.|.+|+|++++ +||||+|.+.++|..|+..|+| .|.
T Consensus       260 ~~~~~~~~~~~~~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~  339 (481)
T TIGR01649       260 LAPAISSYGPAGGGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLF  339 (481)
T ss_pred             cCccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence                    000123568999999997339999999999999999999999874 8999999999999999999999 799


Q ss_pred             CeEEEEEeecCC
Q 048615          239 NRFIKLWWANRD  250 (634)
Q Consensus       239 gR~IkV~wak~~  250 (634)
                      |+.|+|.|++..
T Consensus       340 g~~l~v~~s~~~  351 (481)
T TIGR01649       340 GKPLRVCPSKQQ  351 (481)
T ss_pred             CceEEEEEcccc
Confidence            999999998644

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).

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

Probab=99.90  E-value=3.6e-23  Score=222.51  Aligned_cols=166  Identities=22%  Similarity=0.328  Sum_probs=133.4

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcc---
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPST---  158 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~---  158 (634)
                      ...+...+...|+.+|+|+.++.+..+-....||||||.|.-.||+ +|+...++..|.||.|+|..+..+......   
T Consensus        15 ~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~   94 (678)
T KOG0127|consen   15 FSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKG   94 (678)
T ss_pred             CccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccc
Confidence            3456667788888999998888888887778899999999999999 999999999999999999998876532210   


Q ss_pred             -ccccccccccCCCC----CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHH
Q 048615          159 -KAQNDHMRNIRKPS----QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEA  228 (634)
Q Consensus       159 -~~~~d~~~~~~~~s----~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~  228 (634)
                       +..........++.    ..+..+|.|+|||+ .+...+|..+|+.||.|++|.|++.+     |||||+|....+|..
T Consensus        95 e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf-~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~  173 (678)
T KOG0127|consen   95 ENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPF-KCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEK  173 (678)
T ss_pred             cchhhhcccccCCcchhhccCccceEEeecCCc-ccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHH
Confidence             00000000000011    11246899999999 59999999999999999999998754     699999999999999


Q ss_pred             HHHcCCC-ccCCeEEEEEeecC
Q 048615          229 ALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       229 Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      |++.+|+ .|+||+|.|+||-.
T Consensus       174 Al~~~N~~~i~gR~VAVDWAV~  195 (678)
T KOG0127|consen  174 ALEFFNGNKIDGRPVAVDWAVD  195 (678)
T ss_pred             HHHhccCceecCceeEEeeecc
Confidence            9999999 89999999999963

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.90  E-value=2.5e-23  Score=222.72  Aligned_cols=158  Identities=21%  Similarity=0.287  Sum_probs=135.8

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.+.|.+ +....++++++.+|..+|.|..+++++++.++.++|||||+|.+.++| +||..|||..|.+++|+|.++.+
T Consensus       108 ~~LfVgn-Lp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p  186 (346)
T TIGR01659       108 TNLIVNY-LPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARP  186 (346)
T ss_pred             cEEEEeC-CCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccc
Confidence            3444444 566778899999999999998888888887788899999999999999 99999999999999999998764


Q ss_pred             cCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHH
Q 048615          152 KNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREE  225 (634)
Q Consensus       152 k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~  225 (634)
                      ...                  ....++|||+|||+. +++++|+++|++||.|+.|+|++++      +||||+|.++++
T Consensus       187 ~~~------------------~~~~~~lfV~nLp~~-vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~  247 (346)
T TIGR01659       187 GGE------------------SIKDTNLYVTNLPRT-ITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREE  247 (346)
T ss_pred             ccc------------------ccccceeEEeCCCCc-ccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHH
Confidence            221                  012468999999995 9999999999999999999999875      699999999999


Q ss_pred             HHHHHHcCCC-ccCC--eEEEEEeecCC
Q 048615          226 AEAALKSPDA-VMGN--RFIKLWWANRD  250 (634)
Q Consensus       226 A~~Ai~~lng-~l~g--R~IkV~wak~~  250 (634)
                      |++||+.|++ .+.+  ++|+|.|++..
T Consensus       248 A~~Ai~~lng~~~~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       248 AQEAISALNNVIPEGGSQPLTVRLAEEH  275 (346)
T ss_pred             HHHHHHHhCCCccCCCceeEEEEECCcc
Confidence            9999999999 5654  79999999754

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).

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

Probab=99.88  E-value=1e-21  Score=207.59  Aligned_cols=142  Identities=23%  Similarity=0.311  Sum_probs=125.3

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCcee-CCEEEEEccCcccCCCCcccc
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYR-RGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l-~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      .+-.++++.-+|++||.|-.++.|.++.++.+||||||.|.++++| +||..||+.+| .||.|.|..+.          
T Consensus        93 rD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv----------  162 (506)
T KOG0117|consen   93 RDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV----------  162 (506)
T ss_pred             ccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee----------
Confidence            4667889999999999999999999999999999999999999999 99999999998 69999988543          


Q ss_pred             ccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEec-------CCCeEEEEeCCHHHHHHHHHc
Q 048615          161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIPL-------NSERAFVQFSKREEAEAALKS  232 (634)
Q Consensus       161 ~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~~-------dkg~AFV~F~s~e~A~~Ai~~  232 (634)
                                    .+|+|||||||. +.++++|.+.|++.++ |++|-|..       ++|||||+|.+|..|..|.+.
T Consensus       163 --------------an~RLFiG~IPK-~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrK  227 (506)
T KOG0117|consen  163 --------------ANCRLFIGNIPK-TKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRK  227 (506)
T ss_pred             --------------ecceeEeccCCc-cccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhh
Confidence                          268999999999 5899999999999886 66776654       458999999999999999987


Q ss_pred             CC-C--ccCCeEEEEEeecC
Q 048615          233 PD-A--VMGNRFIKLWWANR  249 (634)
Q Consensus       233 ln-g--~l~gR~IkV~wak~  249 (634)
                      |- +  .+-|..|.|+||.+
T Consensus       228 l~~g~~klwgn~~tVdWAep  247 (506)
T KOG0117|consen  228 LMPGKIKLWGNAITVDWAEP  247 (506)
T ss_pred             ccCCceeecCCcceeeccCc
Confidence            74 5  57899999999963

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

Probab=99.88  E-value=3.1e-21  Score=215.96  Aligned_cols=167  Identities=13%  Similarity=0.182  Sum_probs=121.4

Q ss_pred             CCcccccCCCccccccccccceeee------------cceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCcee
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRI------------GSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYR  139 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~I------------g~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l  139 (634)
                      ..++|+| +.+..++..+..+|..+            +.|..+..      ...+|||||+|.+.++| .|| .|||..|
T Consensus       176 r~lyVgn-Lp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al-~l~g~~~  247 (509)
T TIGR01642       176 RRLYVGG-IPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAM-ALDSIIY  247 (509)
T ss_pred             cEEEEeC-CCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhh-cCCCeEe
Confidence            3455666 55566777888877653            12222211      23489999999999999 999 6999999


Q ss_pred             CCEEEEEccCcccCCCCc-----cccccc-cccc-----cCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEE
Q 048615          140 RGKRIIEGDAIQKNMDPS-----TKAQND-HMRN-----IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIY  208 (634)
Q Consensus       140 ~GR~I~V~~a~~k~~~~~-----~~~~~d-~~~~-----~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~  208 (634)
                      .|++|+|.........+.     .....+ ....     .........++|||+|||+. +++++|+++|+.||.|..+.
T Consensus       248 ~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~-~~~~~l~~~f~~~G~i~~~~  326 (509)
T TIGR01642       248 SNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLY-LGEDQIKELLESFGDLKAFN  326 (509)
T ss_pred             eCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEE
Confidence            999999986543221100     000000 0000     00111234579999999995 99999999999999999999


Q ss_pred             EecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          209 IPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       209 v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      |+.+      +|||||+|.+.++|..|+..|+| .|+|+.|+|.|+.
T Consensus       327 ~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~  373 (509)
T TIGR01642       327 LIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC  373 (509)
T ss_pred             EEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence            9875      47999999999999999999999 8999999999986

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

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

Probab=99.88  E-value=2.4e-21  Score=192.78  Aligned_cols=153  Identities=24%  Similarity=0.310  Sum_probs=134.9

Q ss_pred             cCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCc
Q 048615           79 NAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPS  157 (634)
Q Consensus        79 n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~  157 (634)
                      |-+.-.-++++++|+|+.||++..++.+++|..+.+=|||||.|-+++|| +||..|||..|..+.|+|.++++.+..  
T Consensus        47 NYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~--  124 (360)
T KOG0145|consen   47 NYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDS--  124 (360)
T ss_pred             eecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhh--
Confidence            43455578999999999999999999999999999999999999999999 999999999999999999999765421  


Q ss_pred             cccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHH
Q 048615          158 TKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALK  231 (634)
Q Consensus       158 ~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~  231 (634)
                                      .....|||.+||. +++..+|..+|++||.|...+|..|      +|.+||.|+.+.+|+.||+
T Consensus       125 ----------------Ik~aNLYvSGlPk-tMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk  187 (360)
T KOG0145|consen  125 ----------------IKDANLYVSGLPK-TMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIK  187 (360)
T ss_pred             ----------------hcccceEEecCCc-cchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHH
Confidence                            1135899999999 6999999999999999999888776      4799999999999999999


Q ss_pred             cCCC-c--cCCeEEEEEeecCC
Q 048615          232 SPDA-V--MGNRFIKLWWANRD  250 (634)
Q Consensus       232 ~lng-~--l~gR~IkV~wak~~  250 (634)
                      .+|| .  -.-.+|.|.|++..
T Consensus       188 ~lNG~~P~g~tepItVKFannP  209 (360)
T KOG0145|consen  188 GLNGQKPSGCTEPITVKFANNP  209 (360)
T ss_pred             hccCCCCCCCCCCeEEEecCCc
Confidence            9999 3  33578999999633

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.87  E-value=9.7e-22  Score=209.74  Aligned_cols=173  Identities=20%  Similarity=0.298  Sum_probs=132.3

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCC--EEEEEccCcc
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRG--KRIIEGDAIQ  151 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~G--R~I~V~~a~~  151 (634)
                      +.|.+ +....+++.+..+|.++|.+..+..+.++.++.++|||||+|.+.++| +||..|||..+.|  ++|.|.++..
T Consensus        92 l~v~~-l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~  170 (352)
T TIGR01661        92 LYVSG-LPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANN  170 (352)
T ss_pred             EEECC-ccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCC
Confidence            34443 444567788889999998888777777777777899999999999999 9999999999987  6788988764


Q ss_pred             cCCCCc--------------ccc--cc-----------------------c---c----------------ccc------
Q 048615          152 KNMDPS--------------TKA--QN-----------------------D---H----------------MRN------  167 (634)
Q Consensus       152 k~~~~~--------------~~~--~~-----------------------d---~----------------~~~------  167 (634)
                      ......              ...  ..                       .   .                ...      
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (352)
T TIGR01661       171 PSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPATD  250 (352)
T ss_pred             CCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCcccc
Confidence            331000              000  00                       0   0                000      


Q ss_pred             ---------cCC-CCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHH
Q 048615          168 ---------IRK-PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALK  231 (634)
Q Consensus       168 ---------~~~-~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~  231 (634)
                               ... .......+|||+|||++ +++++|+++|++||.|.+|+|+++      +|||||+|.+.++|.+||.
T Consensus       251 ~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~-~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~  329 (352)
T TIGR01661       251 GQTAGLAAGAQIAASDGAGYCIFVYNLSPD-TDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAIL  329 (352)
T ss_pred             ccccccccCCCCCCCCCCCcEEEEeCCCCC-CCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHH
Confidence                     000 00112347999999996 999999999999999999999987      4799999999999999999


Q ss_pred             cCCC-ccCCeEEEEEeecC
Q 048615          232 SPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       232 ~lng-~l~gR~IkV~wak~  249 (634)
                      .||| .|+||.|+|.|...
T Consensus       330 ~lnG~~~~gr~i~V~~~~~  348 (352)
T TIGR01661       330 SLNGYTLGNRVLQVSFKTN  348 (352)
T ss_pred             HhCCCEECCeEEEEEEccC
Confidence            9999 89999999999863

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

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

Probab=99.86  E-value=7e-21  Score=190.76  Aligned_cols=229  Identities=22%  Similarity=0.349  Sum_probs=177.9

Q ss_pred             CCCCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHHHHHhccCCceeCCEEEEEccCc
Q 048615           71 ADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        71 ~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .|.+.+|+| +...-+++.+..+|..||+|..++++               |+                   .|+|.|+.
T Consensus         5 ~prtlyvgn-ld~~vte~~i~~lf~qig~v~~~k~i---------------~~-------------------e~~v~wa~   49 (321)
T KOG0148|consen    5 EPRTLYVGN-LDSTVTEDFIATLFNQIGSVTKTKVI---------------FD-------------------ELKVNWAT   49 (321)
T ss_pred             CCceEEeec-cChhhHHHHHHHHHHhccccccceee---------------hh-------------------hhcccccc
Confidence            345667777 66667899999999999999987553               33                   45677776


Q ss_pred             ccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHH
Q 048615          151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKRE  224 (634)
Q Consensus       151 ~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e  224 (634)
                      .....             .++.......|||+.|..+ ++-++|++.|.+||+|.+++|++|      +||+||.|-+.+
T Consensus        50 ~p~nQ-------------sk~t~~~hfhvfvgdls~e-I~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~  115 (321)
T KOG0148|consen   50 APGNQ-------------SKPTSNQHFHVFVGDLSPE-IDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKE  115 (321)
T ss_pred             CcccC-------------CCCccccceeEEehhcchh-cchHHHHHHhccccccccceEeecccCCcccceeEEeccchH
Confidence            43100             0112222568999999996 999999999999999999999997      479999999999


Q ss_pred             HHHHHHHcCCC-ccCCeEEEEEeecCCCCCCCCCCCCCcCcccCCCCCCCCCCCcccccccccCCCcccccCCCCCCCCC
Q 048615          225 EAEAALKSPDA-VMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTLKGGNIVPAA  303 (634)
Q Consensus       225 ~A~~Ai~~lng-~l~gR~IkV~wak~~~~~~~g~~gg~~s~~~~~~~~~~~p~~~~~~~~~k~~n~~~~~~~~~~~~~~~  303 (634)
                      +|+.||..|+| .|++|.||.+||.+.....                           ++ +                  
T Consensus       116 dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~---------------------------n~-~------------------  149 (321)
T KOG0148|consen  116 DAENAIQQMNGQWLGRRTIRTNWATRKPSEM---------------------------NG-K------------------  149 (321)
T ss_pred             HHHHHHHHhCCeeeccceeeccccccCcccc---------------------------CC-C------------------
Confidence            99999999999 8999999999996322000                           00 0                  


Q ss_pred             ccCCCCCCCCcccCCCCCCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchhhhHHHHHHHHhh
Q 048615          304 DVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLEKQAGGKSDVVSEKAAKRLKVG  383 (634)
Q Consensus       304 ~~~~~~t~~~k~~~~~~~~~~~~~KkqE~le~~~e~~kkKqelL~kq~eeqk~ll~kLek~~~~k~~~~~~~~~ktlk~~  383 (634)
                                                             +   |                               |-.+ 
T Consensus       150 ---------------------------------------~---l-------------------------------tfde-  155 (321)
T KOG0148|consen  150 ---------------------------------------P---L-------------------------------TFDE-  155 (321)
T ss_pred             ---------------------------------------C---c-------------------------------cHHH-
Confidence                                                   0   0                               0000 


Q ss_pred             hHHHHHHHhhccccccccCCCchhhHHhhhhhccccccCccccchhhhcccccccccccCCCCCCCCCCCCccccccCCC
Q 048615          384 IAADVAKATARSSDSTAAVASPRAEMMADKNKLVDIVLSPSQKVNTAMVLQESTSFKQQIRPLAPAGPPFLMNRYKLDNR  463 (634)
Q Consensus       384 ~~~~~~k~~~~~~~~~~~~~~pk~~~~~~k~~~l~~~~~~~~k~~~~~~lq~~~~~~g~~~~~~~~G~~~~~~~~~lDnr  463 (634)
                      +                                                                      .|..+  ..
T Consensus       156 V----------------------------------------------------------------------~NQss--p~  163 (321)
T KOG0148|consen  156 V----------------------------------------------------------------------YNQSS--PD  163 (321)
T ss_pred             H----------------------------------------------------------------------hccCC--CC
Confidence            0                                                                      00001  13


Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~  541 (634)
                      +|+|+| |+++..++ |+.||++|..||.|-.|.+-.++             +.+||.|.|-.+|-+|+.  +|..|.|+
T Consensus       164 NtsVY~-G~I~~~lt-e~~mr~~Fs~fG~I~EVRvFk~q-------------GYaFVrF~tkEaAahAIv~mNntei~G~  228 (321)
T KOG0148|consen  164 NTSVYV-GNIASGLT-EDLMRQTFSPFGPIQEVRVFKDQ-------------GYAFVRFETKEAAAHAIVQMNNTEIGGQ  228 (321)
T ss_pred             CceEEe-CCcCcccc-HHHHHHhcccCCcceEEEEeccc-------------ceEEEEecchhhHHHHHHHhcCceeCce
Confidence            589999 89999887 99999999999999999999988             899999999999999986  59999999


Q ss_pred             eeEEEEeCCCCCCC
Q 048615          542 DLQFTWLMPSSSSN  555 (634)
Q Consensus       542 ~l~l~W~~~~~~~~  555 (634)
                      .|+..|++......
T Consensus       229 ~VkCsWGKe~~~~~  242 (321)
T KOG0148|consen  229 LVRCSWGKEGDDGI  242 (321)
T ss_pred             EEEEeccccCCCCC
Confidence            99999999887543

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

Probab=99.82  E-value=1.1e-20  Score=180.16  Aligned_cols=167  Identities=22%  Similarity=0.248  Sum_probs=140.9

Q ss_pred             cCCCCCCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEE
Q 048615           68 SDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIE  146 (634)
Q Consensus        68 ~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V  146 (634)
                      .+++|++++++| +....++..+..+|..+|+|.++++++++.+...+|||||+|.++|+| .|++-||+..|.||+|+|
T Consensus         5 ~rnqd~tiyvgn-ld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv   83 (203)
T KOG0131|consen    5 ERNQDATLYVGN-LDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRV   83 (203)
T ss_pred             ccCCCceEEEec-CCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEE
Confidence            355677777766 555677788999999999999999999999988999999999999999 999999999999999999


Q ss_pred             ccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEE-EEecC------CCeEEEE
Q 048615          147 GDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDI-YIPLN------SERAFVQ  219 (634)
Q Consensus       147 ~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v-~v~~d------kg~AFV~  219 (634)
                      +.+......                 ...+.+|||+||.++ +++..|.++|+.||.|... .|+++      ++||||.
T Consensus        84 ~kas~~~~n-----------------l~vganlfvgNLd~~-vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~  145 (203)
T KOG0131|consen   84 NKASAHQKN-----------------LDVGANLFVGNLDPE-VDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFIN  145 (203)
T ss_pred             Eeccccccc-----------------ccccccccccccCcc-hhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEe
Confidence            977621110                 011468999999995 9999999999999998763 44443      3599999


Q ss_pred             eCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCCC
Q 048615          220 FSKREEAEAALKSPDA-VMGNRFIKLWWANRDSIP  253 (634)
Q Consensus       220 F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~~  253 (634)
                      |.+.+.+.+|+.+++| .+++|+|.|+|+.+....
T Consensus       146 ~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~k  180 (203)
T KOG0131|consen  146 YASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTK  180 (203)
T ss_pred             chhHHHHHHHHHHhccchhcCCceEEEEEEecCCC
Confidence            9999999999999999 899999999999765443

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

Probab=99.82  E-value=8.6e-20  Score=192.37  Aligned_cols=151  Identities=21%  Similarity=0.280  Sum_probs=129.1

Q ss_pred             cccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCce-eCC--EEEEEccCcccCCCCccc
Q 048615           84 AVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSY-RRG--KRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        84 ~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~-l~G--R~I~V~~a~~k~~~~~~~  159 (634)
                      ..++.+++.+|.++|.|..+.++|+|.++.++|||||.|.+.++| +|+..|+... |-|  .+|.|+++......-   
T Consensus        45 t~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~---  121 (510)
T KOG0144|consen   45 TASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERERI---  121 (510)
T ss_pred             cccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhcc---
Confidence            368889999999999999999999999999999999999999999 9999998855 434  367888776433110   


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~ln  234 (634)
                                    ...++|||+-|+.. ++|.+++++|++||.|.+|+|.++     ||||||+|.+++-|..||+.||
T Consensus       122 --------------~~e~KLFvg~lsK~-~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~n  186 (510)
T KOG0144|consen  122 --------------VEERKLFVGMLSKQ-CTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALN  186 (510)
T ss_pred             --------------ccchhhhhhhcccc-ccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhc
Confidence                          12579999999995 999999999999999999999996     4799999999999999999999


Q ss_pred             C--ccC--CeEEEEEeecCCCC
Q 048615          235 A--VMG--NRFIKLWWANRDSI  252 (634)
Q Consensus       235 g--~l~--gR~IkV~wak~~~~  252 (634)
                      |  .|.  ..+|.|.||...+.
T Consensus       187 g~~tmeGcs~PLVVkFADtqkd  208 (510)
T KOG0144|consen  187 GTQTMEGCSQPLVVKFADTQKD  208 (510)
T ss_pred             cceeeccCCCceEEEecccCCC
Confidence            9  455  47899999965543

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

Probab=99.81  E-value=7.2e-20  Score=208.01  Aligned_cols=171  Identities=20%  Similarity=0.333  Sum_probs=134.4

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeC----CEEEEEccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRR----GKRIIEGDA  149 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~----GR~I~V~~a  149 (634)
                      +.|+| +....+++.+..+|.++|.|..+..+++. ++.++|||||+|.+.++| +|+..|||..+.    |+.|.|.++
T Consensus       181 l~V~n-l~~~~tee~L~~~F~~fG~i~~~~i~~~~-~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a  258 (562)
T TIGR01628       181 LYVKN-LDPSVNEDKLRELFAKFGEITSAAVMKDG-SGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRA  258 (562)
T ss_pred             EEEeC-CCCcCCHHHHHHHHHhcCCEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecc
Confidence            44554 55566788888888888888877776665 456799999999999999 999999999999    999999988


Q ss_pred             cccCCCCcc-ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCH
Q 048615          150 IQKNMDPST-KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKR  223 (634)
Q Consensus       150 ~~k~~~~~~-~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~  223 (634)
                      ..+...... ......... ........++|||+||+++ +++++|+++|++||.|.+|+|+.+.     +||||+|.+.
T Consensus       259 ~~k~er~~~~~~~~~~~~~-~~~~~~~~~~l~V~nl~~~-~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~  336 (562)
T TIGR01628       259 QKRAEREAELRRKFEELQQ-ERKMKAQGVNLYVKNLDDT-VTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNP  336 (562)
T ss_pred             cChhhhHHHHHhhHHhhhh-hhhcccCCCEEEEeCCCCc-cCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCH
Confidence            655421100 000000000 0011123578999999995 9999999999999999999998764     7999999999


Q ss_pred             HHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          224 EEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       224 e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ++|.+|+..++| .|+|+.|+|.|+.+
T Consensus       337 ~~A~~A~~~~~g~~~~gk~l~V~~a~~  363 (562)
T TIGR01628       337 EEANRAVTEMHGRMLGGKPLYVALAQR  363 (562)
T ss_pred             HHHHHHHHHhcCCeeCCceeEEEeccC
Confidence            999999999999 89999999999965

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=99.78  E-value=1.4e-18  Score=195.88  Aligned_cols=154  Identities=17%  Similarity=0.169  Sum_probs=119.4

Q ss_pred             ccccccccccceeeecc--eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCC--ceeCCEEEEEccCcccCCCCc
Q 048615           83 AAVSQNTSMSVWGRIGS--SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQG--SYRRGKRIIEGDAIQKNMDPS  157 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~--V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG--~~l~GR~I~V~~a~~k~~~~~  157 (634)
                      ...+.+.+...|.+++.  +..+.........+++|||||+|.+.++| .|+..|+.  ..+.|+.|.|.|+.+......
T Consensus       148 ~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~  227 (578)
T TIGR01648       148 KNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDE  227 (578)
T ss_pred             cchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccc
Confidence            34566777778888754  22221112222345699999999999999 99988764  468899999999976542111


Q ss_pred             cccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccC--CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC
Q 048615          158 TKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKF--GEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       158 ~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~Fskf--G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng  235 (634)
                           +        .....++|||+|||++ +++++|+++|++|  |.|.+|.+++  +||||+|.++++|.+|++.||+
T Consensus       228 -----~--------~~~~~k~LfVgNL~~~-~tee~L~~~F~~f~~G~I~rV~~~r--gfAFVeF~s~e~A~kAi~~lnG  291 (578)
T TIGR01648       228 -----D--------VMAKVKILYVRNLMTT-TTEEIIEKSFSEFKPGKVERVKKIR--DYAFVHFEDREDAVKAMDELNG  291 (578)
T ss_pred             -----c--------ccccccEEEEeCCCCC-CCHHHHHHHHHhcCCCceEEEEeec--CeEEEEeCCHHHHHHHHHHhCC
Confidence                 0        0112478999999995 9999999999999  9999998764  6999999999999999999999


Q ss_pred             -ccCCeEEEEEeecCCCC
Q 048615          236 -VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       236 -~l~gR~IkV~wak~~~~  252 (634)
                       .|+|+.|+|.|+++...
T Consensus       292 ~~i~Gr~I~V~~Akp~~~  309 (578)
T TIGR01648       292 KELEGSEIEVTLAKPVDK  309 (578)
T ss_pred             CEECCEEEEEEEccCCCc
Confidence             89999999999987543

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=99.77  E-value=1.4e-17  Score=178.66  Aligned_cols=73  Identities=23%  Similarity=0.363  Sum_probs=67.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|+.||.|++|+|+.++      +||||+|.+.++|.+|++.|++ .|.+++|+|.|+
T Consensus       106 ~~~~LfVgnLp~~-~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a  184 (346)
T TIGR01659       106 SGTNLIVNYLPQD-MTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA  184 (346)
T ss_pred             CCcEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence            4789999999996 9999999999999999999998764      6999999999999999999999 799999999876


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      +
T Consensus       185 ~  185 (346)
T TIGR01659       185 R  185 (346)
T ss_pred             c
Confidence            3

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=99.75  E-value=4.4e-17  Score=168.68  Aligned_cols=166  Identities=16%  Similarity=0.236  Sum_probs=126.8

Q ss_pred             CcccccCCCcc-ccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           74 DLPVRNAGTAA-VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        74 ~~~v~n~~~~~-~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      .|.|+-+.+.| --+++++.-|..+|+++..-..-+..+++++||+||+|+-+|.| -|+..|||..++||.|+|+....
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN  192 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN  192 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence            45555544544 34555666666666666554555666778899999999999999 99999999999999999995443


Q ss_pred             cCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHH
Q 048615          152 KNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREE  225 (634)
Q Consensus       152 k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~  225 (634)
                      -....+  .......     ..+...+|||..+.+| +++++|+.+|+.||+|++|.+.++      +||+||+|.+..+
T Consensus       193 mpQAQp--iID~vqe-----eAk~fnRiYVaSvHpD-LSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs  264 (544)
T KOG0124|consen  193 MPQAQP--IIDMVQE-----EAKKFNRIYVASVHPD-LSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQS  264 (544)
T ss_pred             Ccccch--HHHHHHH-----HHHhhheEEeeecCCC-ccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccc
Confidence            221111  0000000     0022468999999998 999999999999999999999874      5799999999999


Q ss_pred             HHHHHHcCCC-ccCCeEEEEEee
Q 048615          226 AEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       226 A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      -..|+..||- .++|..|+|--+
T Consensus       265 ~~eAiasMNlFDLGGQyLRVGk~  287 (544)
T KOG0124|consen  265 QSEAIASMNLFDLGGQYLRVGKC  287 (544)
T ss_pred             hHHHhhhcchhhcccceEecccc
Confidence            9999999998 799999999765

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

Probab=99.74  E-value=1.2e-17  Score=187.19  Aligned_cols=175  Identities=14%  Similarity=0.205  Sum_probs=131.9

Q ss_pred             CcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           74 DLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        74 ~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      .+.|+| +....+++.+..+|..+|.|..+..++++.++.++|||||+|.+.++| .||..|||..|+|+.|+|.++...
T Consensus       297 ~l~v~n-lp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~  375 (509)
T TIGR01642       297 RIYIGN-LPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG  375 (509)
T ss_pred             EEEEeC-CCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence            445555 455667888888888888888877777777778899999999999999 999999999999999999988654


Q ss_pred             CCCCccccc----------cccccccCCCCCCCCCEEEEeCCCCC--CCC-------HHHHHHhhccCCCEEEEEEecC-
Q 048615          153 NMDPSTKAQ----------NDHMRNIRKPSQKALRTLFVNNVPLK--SNR-------REALLSHFQKFGEVVDIYIPLN-  212 (634)
Q Consensus       153 ~~~~~~~~~----------~d~~~~~~~~s~~~~~tLfVgnLp~d--~~t-------e~~L~~~FskfG~I~~v~v~~d-  212 (634)
                      .........          .............+..+|+|.|+...  .++       .++|+++|++||.|..|.|+++ 
T Consensus       376 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~  455 (509)
T TIGR01642       376 ANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPN  455 (509)
T ss_pred             CCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccC
Confidence            321110000          00000000011234578999999641  111       2579999999999999999864 


Q ss_pred             --------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          213 --------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       213 --------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                              .|++||+|.+.++|.+|+..|+| .|+||.|.|.|...
T Consensus       456 ~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~  501 (509)
T TIGR01642       456 GDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGE  501 (509)
T ss_pred             cCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCH
Confidence                    36899999999999999999999 89999999999854

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

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

Probab=99.74  E-value=5.3e-17  Score=175.21  Aligned_cols=137  Identities=18%  Similarity=0.272  Sum_probs=115.5

Q ss_pred             ccccccccccceeeecc---eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcc
Q 048615           83 AAVSQNTSMSVWGRIGS---SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPST  158 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~---V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~  158 (634)
                      +..++..++..|..+|+   +++|+++ +     +-|||||.|.++++| +||.+||...+.|++|+|-|+....     
T Consensus         8 ~~v~e~~l~~~f~~~~~v~s~rvc~d~-t-----slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~-----   76 (369)
T KOG0123|consen    8 PDVTEAMLFDKFSPAGPVLSIRVCRDA-T-----SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP-----   76 (369)
T ss_pred             CcCChHHHHHHhcccCCceeEEEeecC-C-----ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC-----
Confidence            34555566666666555   5555555 3     579999999999999 9999999999999999999875322     


Q ss_pred             ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCC
Q 048615          159 KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       159 ~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~ln  234 (634)
                                        +.|||.||+++ ++...|.++|+.||+|++|+|..+.    +| ||+|++.++|.+|+..+|
T Consensus        77 ------------------~~~~i~nl~~~-~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~n  136 (369)
T KOG0123|consen   77 ------------------SLVFIKNLDES-IDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLN  136 (369)
T ss_pred             ------------------ceeeecCCCcc-cCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhc
Confidence                              23999999996 9999999999999999999999875    58 999999999999999999


Q ss_pred             C-ccCCeEEEEEeecCC
Q 048615          235 A-VMGNRFIKLWWANRD  250 (634)
Q Consensus       235 g-~l~gR~IkV~wak~~  250 (634)
                      | .+.|+.|.|..+.+.
T Consensus       137 g~ll~~kki~vg~~~~~  153 (369)
T KOG0123|consen  137 GMLLNGKKIYVGLFERK  153 (369)
T ss_pred             CcccCCCeeEEeeccch
Confidence            9 788999999877543

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

Probab=99.73  E-value=2.9e-17  Score=177.34  Aligned_cols=171  Identities=25%  Similarity=0.354  Sum_probs=134.5

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .+++| ++.......+..+|+.||-|..+.++ .+.++.+.|||||.|....+| .||..|||.+|+||+|-|+||.++.
T Consensus       120 LIIRN-LPf~~k~~dLk~vFs~~G~V~Ei~IP-~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd  197 (678)
T KOG0127|consen  120 LIIRN-LPFKCKKPDLKNVFSNFGKVVEIVIP-RKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD  197 (678)
T ss_pred             EEeec-CCcccCcHHHHHHHhhcceEEEEEcc-cCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence            46777 65566667899999999999999888 555667789999999999999 9999999999999999999999876


Q ss_pred             CCCc--------c-----------------c------c------cc--cc------------------ccc--cC-----
Q 048615          154 MDPS--------T-----------------K------A------QN--DH------------------MRN--IR-----  169 (634)
Q Consensus       154 ~~~~--------~-----------------~------~------~~--d~------------------~~~--~~-----  169 (634)
                      .-..        .                 .      .      ..  +.                  +..  ..     
T Consensus       198 ~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~  277 (678)
T KOG0127|consen  198 TYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESD  277 (678)
T ss_pred             cccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCccc
Confidence            2100        0                 0      0      00  00                  000  00     


Q ss_pred             --------CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcC--
Q 048615          170 --------KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSP--  233 (634)
Q Consensus       170 --------~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~l--  233 (634)
                              +....-..+|||+|||++ ++++.|.++|++||.|.++.|+.++      |+|||.|.+..+|..||...  
T Consensus       278 k~~q~k~~~en~~~~~tVFvRNL~fD-~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Asp  356 (678)
T KOG0127|consen  278 KKAQNKTTRENITEGKTVFVRNLPFD-TTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASP  356 (678)
T ss_pred             chhccccccccccccceEEEecCCcc-ccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCc
Confidence                    000112379999999998 9999999999999999999998875      79999999999999999987  


Q ss_pred             ---CC--ccCCeEEEEEeec
Q 048615          234 ---DA--VMGNRFIKLWWAN  248 (634)
Q Consensus       234 ---ng--~l~gR~IkV~wak  248 (634)
                         .|  .|+||.|+|..|-
T Consensus       357 a~e~g~~ll~GR~Lkv~~Av  376 (678)
T KOG0127|consen  357 ASEDGSVLLDGRLLKVTLAV  376 (678)
T ss_pred             cCCCceEEEeccEEeeeecc
Confidence               23  5899999999884

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

Probab=99.70  E-value=6.8e-16  Score=174.56  Aligned_cols=71  Identities=24%  Similarity=0.454  Sum_probs=66.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ..++|||+|||++ +++++|+++|++||.|.+|+|+++      +|||||+|.+.++|.+|++.||| .|+||.|+|.+
T Consensus       106 ~~~rLfVGnLp~~-~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r  183 (612)
T TIGR01645       106 IMCRVYVGSISFE-LREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR  183 (612)
T ss_pred             CCCEEEEcCCCCC-CCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence            3689999999995 999999999999999999999876      47999999999999999999999 89999999974

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.

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

Probab=99.68  E-value=1e-16  Score=178.04  Aligned_cols=166  Identities=21%  Similarity=0.296  Sum_probs=133.8

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccC---CCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKID---ATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~---~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .++.| +++.++...+..+|...|.|..+.+.+.+-.   -.|.|||||+|.+.++| .|+..|+|+.|+|+.|.|..+.
T Consensus       518 lfvkN-lnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  518 LFVKN-LNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             hhhhc-CCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            34444 7778889999888888888777755444322   13569999999999999 9999999999999999999887


Q ss_pred             ccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHH
Q 048615          151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKRE  224 (634)
Q Consensus       151 ~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e  224 (634)
                      .++....    +     ...+.....++|+|.|||++ .+..+++.+|..||.|..|+|+..      +|||||+|-+..
T Consensus       597 ~k~~~~~----g-----K~~~~kk~~tKIlVRNipFe-At~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~  666 (725)
T KOG0110|consen  597 NKPASTV----G-----KKKSKKKKGTKILVRNIPFE-ATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPR  666 (725)
T ss_pred             Ccccccc----c-----cccccccccceeeeeccchH-HHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcH
Confidence            3321111    1     11122334689999999996 999999999999999999999874      579999999999


Q ss_pred             HHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          225 EAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       225 ~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      +|..|+.+|.. .|-||+|.+.||+.+.
T Consensus       667 ea~nA~~al~STHlyGRrLVLEwA~~d~  694 (725)
T KOG0110|consen  667 EAKNAFDALGSTHLYGRRLVLEWAKSDN  694 (725)
T ss_pred             HHHHHHHhhcccceechhhheehhccch
Confidence            99999999988 7999999999998654

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

Probab=99.66  E-value=1e-15  Score=169.48  Aligned_cols=174  Identities=18%  Similarity=0.267  Sum_probs=129.7

Q ss_pred             CcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           74 DLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        74 ~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      .+.|+| +....+++.+..+|..+|.|..+..+.+..++.++|||||+|.+.++| +|+..|||..|.|++|+|.++...
T Consensus       188 ~l~v~n-l~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~  266 (457)
T TIGR01622       188 KLYVGN-LHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDS  266 (457)
T ss_pred             EEEEcC-CCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence            344544 445567888888999999888888887777778899999999999999 999999999999999999996521


Q ss_pred             CCCC-----------------ccc------------ccc----------------------c-ccc--------------
Q 048615          153 NMDP-----------------STK------------AQN----------------------D-HMR--------------  166 (634)
Q Consensus       153 ~~~~-----------------~~~------------~~~----------------------d-~~~--------------  166 (634)
                      ....                 ...            ...                      + ...              
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  346 (457)
T TIGR01622       267 TYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAI  346 (457)
T ss_pred             CccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhcccccccccccccccccccccccc
Confidence            1000                 000            000                      0 000              


Q ss_pred             ---ccCCC---CCCCCCEEEEeCCCCCCCC----------HHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCHHHHHH
Q 048615          167 ---NIRKP---SQKALRTLFVNNVPLKSNR----------REALLSHFQKFGEVVDIYIPLN--SERAFVQFSKREEAEA  228 (634)
Q Consensus       167 ---~~~~~---s~~~~~tLfVgnLp~d~~t----------e~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~e~A~~  228 (634)
                         ....+   .....+.|+|.||... .+          .++|++.|++||.|+.|.|...  .|++||+|.++++|.+
T Consensus       347 ~~~~~~~~~~~~~~~~~~l~l~n~~~~-~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~  425 (457)
T TIGR01622       347 MARNSFVPSTNNNLATTCLVLSNMFDP-ATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALA  425 (457)
T ss_pred             ccCCCCCCcccCCCCCcEEEEecCCCC-cccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHH
Confidence               00000   1134578999998542 22          3689999999999999998743  4899999999999999


Q ss_pred             HHHcCCC-ccCCeEEEEEeecC
Q 048615          229 ALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       229 Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      |++.|+| .|+||.|.|.|...
T Consensus       426 A~~~lnGr~f~gr~i~~~~~~~  447 (457)
T TIGR01622       426 AFQALNGRYFGGKMITAAFVVN  447 (457)
T ss_pred             HHHHhcCcccCCeEEEEEEEcH
Confidence            9999999 89999999999853

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.

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

Probab=99.64  E-value=4.1e-16  Score=165.55  Aligned_cols=152  Identities=21%  Similarity=0.258  Sum_probs=119.4

Q ss_pred             ccccccccceeeecc-eeeeeccccccC-CCcCceEEEEcCCHHHH-HHHhcc-CC-ceeCCEEEEEccCcccCCCCccc
Q 048615           85 VSQNTSMSVWGRIGS-SKNRSNVKEKID-ATLNSLDYLENETKEDR-EALPSL-QG-SYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        85 ~s~~~~~svfg~Ig~-V~~~~~~k~k~~-~~s~GfgFVeF~~~e~A-~Ai~~m-nG-~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      .+.+++...+.++++ |.++...+.-.+ .+.||||||+|++...| .|-..| +| ..|.|..|.|.||.+...+..  
T Consensus       176 k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~de--  253 (506)
T KOG0117|consen  176 KKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDE--  253 (506)
T ss_pred             ccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCCh--
Confidence            566777788888876 333322222221 24699999999999998 665554 44 347899999999998764322  


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMG  238 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~  238 (634)
                         +.+.+        -..|||+||+.+ +|++.|+++|++||.|.+|..++|  ||||.|.++++|.+||+.+|| .|+
T Consensus       254 ---d~ms~--------VKvLYVRNL~~~-tTeE~lk~~F~~~G~veRVkk~rD--YaFVHf~eR~davkAm~~~ngkeld  319 (506)
T KOG0117|consen  254 ---DTMSK--------VKVLYVRNLMES-TTEETLKKLFNEFGKVERVKKPRD--YAFVHFAEREDAVKAMKETNGKELD  319 (506)
T ss_pred             ---hhhhh--------eeeeeeeccchh-hhHHHHHHHHHhccceEEeecccc--eeEEeecchHHHHHHHHHhcCceec
Confidence               12111        368999999995 999999999999999999988866  999999999999999999999 899


Q ss_pred             CeEEEEEeecCCCC
Q 048615          239 NRFIKLWWANRDSI  252 (634)
Q Consensus       239 gR~IkV~wak~~~~  252 (634)
                      |..|.|.+||+...
T Consensus       320 G~~iEvtLAKP~~k  333 (506)
T KOG0117|consen  320 GSPIEVTLAKPVDK  333 (506)
T ss_pred             CceEEEEecCChhh
Confidence            99999999987544

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

Probab=99.64  E-value=3.6e-16  Score=158.46  Aligned_cols=141  Identities=22%  Similarity=0.332  Sum_probs=119.8

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcccccccc
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDH  164 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~  164 (634)
                      +...++++|..+|.|..+-++        +.||||..+++..| +||..|+|..|+|..|+|+.+++|+           
T Consensus        15 ~~~elr~lFe~ygkVlECDIv--------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKs-----------   75 (346)
T KOG0109|consen   15 TEQELRSLFEQYGKVLECDIV--------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKS-----------   75 (346)
T ss_pred             chHHHHHHHHhhCceEeeeee--------cccceEEeecccccHHHHhhcccceecceEEEEEeccccC-----------
Confidence            445566777777766666333        67999999999999 9999999999999999999877653           


Q ss_pred             ccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          165 MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       165 ~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                               +..++|+|+||.+ .++..+|+..|.+||.|++|.|+++  |+||.|+-.++|..|++.|++ ++.|++++
T Consensus        76 ---------k~stkl~vgNis~-tctn~ElRa~fe~ygpviecdivkd--y~fvh~d~~eda~~air~l~~~~~~gk~m~  143 (346)
T KOG0109|consen   76 ---------KASTKLHVGNISP-TCTNQELRAKFEKYGPVIECDIVKD--YAFVHFDRAEDAVEAIRGLDNTEFQGKRMH  143 (346)
T ss_pred             ---------CCccccccCCCCc-cccCHHHhhhhcccCCceeeeeecc--eeEEEEeeccchHHHHhcccccccccceee
Confidence                     2257999999999 5999999999999999999999865  999999999999999999999 89999999


Q ss_pred             EEeecCCCCCCCCC
Q 048615          244 LWWANRDSIPDDGI  257 (634)
Q Consensus       244 V~wak~~~~~~~g~  257 (634)
                      |......-++.+|.
T Consensus       144 vq~stsrlrtapgm  157 (346)
T KOG0109|consen  144 VQLSTSRLRTAPGM  157 (346)
T ss_pred             eeeeccccccCCCC
Confidence            99997655544444

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

Probab=99.62  E-value=4.1e-15  Score=161.72  Aligned_cols=155  Identities=17%  Similarity=0.293  Sum_probs=123.4

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCC--Ccccccc
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMD--PSTKAQN  162 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~--~~~~~~~  162 (634)
                      ....+..+|..+|.|+.+.++.++.++.++|-|||+|.+.+.. .|| .|.|+.+.|-+|.|.........  .......
T Consensus       192 ~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~a~~s~a~~  270 (549)
T KOG0147|consen  192 PPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRAANASPALQ  270 (549)
T ss_pred             CchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHHHhcccccc
Confidence            3455677777778777777888888888999999999999999 888 89999999999999866533210  0000000


Q ss_pred             ccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-
Q 048615          163 DHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-  235 (634)
Q Consensus       163 d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-  235 (634)
                      .      +....+...|||+||.+ ++++++|+.+|..||.|..|.+..|      +||+||+|.+.+.|.+|+..||| 
T Consensus       271 ~------k~~~~p~~rl~vgnLHf-Nite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngf  343 (549)
T KOG0147|consen  271 G------KGFTGPMRRLYVGNLHF-NITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGF  343 (549)
T ss_pred             c------cccccchhhhhhccccc-CchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccc
Confidence            0      00111233499999999 5999999999999999999999887      47999999999999999999999 


Q ss_pred             ccCCeEEEEEeec
Q 048615          236 VMGNRFIKLWWAN  248 (634)
Q Consensus       236 ~l~gR~IkV~wak  248 (634)
                      +|.||.|+|..-.
T Consensus       344 elAGr~ikV~~v~  356 (549)
T KOG0147|consen  344 ELAGRLIKVSVVT  356 (549)
T ss_pred             eecCceEEEEEee
Confidence            8999999998765

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

Probab=99.60  E-value=3.4e-15  Score=149.24  Aligned_cols=162  Identities=16%  Similarity=0.270  Sum_probs=122.9

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCC--EEEEEccCcccCCCC------
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRG--KRIIEGDAIQKNMDP------  156 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~G--R~I~V~~a~~k~~~~------  156 (634)
                      ++.++..+|.++|.+...++..+..++.++|.|||.|....+| +||..|||+.-.|  .+|.|+++.......      
T Consensus       140 tqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls  219 (360)
T KOG0145|consen  140 TQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLS  219 (360)
T ss_pred             hHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhH
Confidence            4555555555555555555666677778899999999999999 9999999988765  469999887543210      


Q ss_pred             -----cccccccc------------------------------cc---cc-CCCCCCCCCEEEEeCCCCCCCCHHHHHHh
Q 048615          157 -----STKAQNDH------------------------------MR---NI-RKPSQKALRTLFVNNVPLKSNRREALLSH  197 (634)
Q Consensus       157 -----~~~~~~d~------------------------------~~---~~-~~~s~~~~~tLfVgnLp~d~~te~~L~~~  197 (634)
                           +.+.+...                              +.   .. -++.....-.|||-||.++ .+|..|.++
T Consensus       220 ~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNLspd-~de~~LWQl  298 (360)
T KOG0145|consen  220 QLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNLSPD-ADESILWQL  298 (360)
T ss_pred             HhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEecCCC-chHhHHHHH
Confidence                 00110000                              00   00 0112233568999999997 999999999


Q ss_pred             hccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          198 FQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       198 FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      |.+||.|.+|+|++|      +||+||.+.+.++|..||.++|| .+++|.|.|.|..
T Consensus       299 FgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKt  356 (360)
T KOG0145|consen  299 FGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKT  356 (360)
T ss_pred             hCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEec
Confidence            999999999999997      37999999999999999999999 7999999999974

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

Probab=99.52  E-value=1.2e-13  Score=130.95  Aligned_cols=76  Identities=26%  Similarity=0.401  Sum_probs=70.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|.|+.+      ++||||+|.+.++|+.|++.|++ .|+||.|+|.|++
T Consensus        34 ~~~lfVgnL~~~-~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         34 STKLFIGGLSWG-TDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            579999999995 999999999999999999999876      47999999999999999999999 8999999999997


Q ss_pred             CCCC
Q 048615          249 RDSI  252 (634)
Q Consensus       249 ~~~~  252 (634)
                      +...
T Consensus       113 ~~~~  116 (144)
T PLN03134        113 DRPS  116 (144)
T ss_pred             cCCC
Confidence            6544

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

Probab=99.45  E-value=1.7e-13  Score=148.09  Aligned_cols=181  Identities=19%  Similarity=0.297  Sum_probs=131.6

Q ss_pred             CCCchhhhcccCC-CCCccccc---cCCCCCCccccccCCCCCCcccccCCCccccccccccceeeecceeeeecccccc
Q 048615           35 PDTSPGLAALHSS-NDETESLL---NEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKI  110 (634)
Q Consensus        35 ~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~h~~~~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~  110 (634)
                      -+|..||.+||-. +.+.+.+.   ..|++=   +|+-.+.+        .+......+.++.||.|-+|++..+...  
T Consensus        48 ~da~~A~~~~n~~~~~~~~~rim~s~rd~~~---~~i~nl~~--------~~~~~~~~d~f~~~g~ilS~kv~~~~~g--  114 (369)
T KOG0123|consen   48 ADAERALDTMNFDVLKGKPIRIMWSQRDPSL---VFIKNLDE--------SIDNKSLYDTFSEFGNILSCKVATDENG--  114 (369)
T ss_pred             HHHHHHHHHcCCcccCCcEEEeehhccCCce---eeecCCCc--------ccCcHHHHHHHHhhcCeeEEEEEEcCCC--
Confidence            4566799999998 66665443   233322   44333321        1123444556677777777776654332  


Q ss_pred             CCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCC
Q 048615          111 DATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSN  189 (634)
Q Consensus       111 ~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~  189 (634)
                         ++|| ||+|++++.| +||..|||..+.|++|.|.....+......... ..         ...+.+||.+++.+ .
T Consensus       115 ---~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~-~~---------~~~t~v~vk~~~~~-~  179 (369)
T KOG0123|consen  115 ---SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGE-YK---------KRFTNVYVKNLEED-S  179 (369)
T ss_pred             ---ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccc-hh---------hhhhhhheeccccc-c
Confidence               6999 9999999999 999999999999999999988765532211111 11         22478999999995 9


Q ss_pred             CHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          190 RREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       190 te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      ++..|..+|..||.|..+.++.+     ++|+||.|.++++|..|++.+++ .+++..+.
T Consensus       180 ~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~  239 (369)
T KOG0123|consen  180 TDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELY  239 (369)
T ss_pred             chHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCcccee
Confidence            99999999999999999999884     47999999999999999999999 55533333

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

Probab=99.42  E-value=3.5e-13  Score=139.84  Aligned_cols=76  Identities=26%  Similarity=0.374  Sum_probs=70.4

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcC---C
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSG---K  536 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g---~  536 (634)
                      =|-..++|+| |+|-++++ +.+||+||++||||++|.+...+             .||||+|+||.+||+|+..+   .
T Consensus       224 eD~~I~tLyI-g~l~d~v~-e~dIrdhFyqyGeirsi~~~~~~-------------~CAFv~ftTR~aAE~Aae~~~n~l  288 (377)
T KOG0153|consen  224 EDTSIKTLYI-GGLNDEVL-EQDIRDHFYQYGEIRSIRILPRK-------------GCAFVTFTTREAAEKAAEKSFNKL  288 (377)
T ss_pred             cccceeEEEe-cccccchh-HHHHHHHHhhcCCeeeEEeeccc-------------ccceeeehhhHHHHHHHHhhccee
Confidence            4888999999 88888887 99999999999999999999998             89999999999999999864   4


Q ss_pred             ccCCceeEEEEeCC
Q 048615          537 SWQGHDLQFTWLMP  550 (634)
Q Consensus       537 ~~~g~~l~l~W~~~  550 (634)
                      .|+|++|.|.|+.+
T Consensus       289 vI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  289 VINGFRLKIKWGRP  302 (377)
T ss_pred             eecceEEEEEeCCC
Confidence            77999999999999

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

Probab=99.40  E-value=3.3e-13  Score=141.90  Aligned_cols=158  Identities=13%  Similarity=0.217  Sum_probs=132.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHHHHHhccCCceeCCEEEEEccCcccCCCCcccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      .+...+++.++.-|..+|+|..+..|+++.++.++||+||+|.+.+...++....-..|.||.|.+..+.++........
T Consensus        14 isw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~~   93 (311)
T KOG4205|consen   14 LSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVGR   93 (311)
T ss_pred             cCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCccccccccc
Confidence            45678888899999999999999999999999999999999999999944445567889999999998887663322211


Q ss_pred             ccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCC
Q 048615          161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       161 ~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~ln  234 (634)
                      ..            ...+|||++||++ +++.+|+++|.+||.|..+.++.|+      +|+||+|.+++...+++...-
T Consensus        94 ~~------------~tkkiFvGG~~~~-~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f  160 (311)
T KOG4205|consen   94 HL------------RTKKIFVGGLPPD-TTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKF  160 (311)
T ss_pred             cc------------ceeEEEecCcCCC-CchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccce
Confidence            11            2469999999996 9999999999999999999988864      699999999999999987766


Q ss_pred             CccCCeEEEEEeecCCC
Q 048615          235 AVMGNRFIKLWWANRDS  251 (634)
Q Consensus       235 g~l~gR~IkV~wak~~~  251 (634)
                      ..|+++.+.|.-|-+..
T Consensus       161 ~~~~gk~vevkrA~pk~  177 (311)
T KOG4205|consen  161 HDFNGKKVEVKRAIPKE  177 (311)
T ss_pred             eeecCceeeEeeccchh
Confidence            68999999999996543

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

Probab=99.35  E-value=7.5e-12  Score=139.79  Aligned_cols=168  Identities=23%  Similarity=0.214  Sum_probs=121.5

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +-+.++| +.+.....++..+|.++|+|..+..+...      --++|+|-+..+| .|...|....+..-++++.|+..
T Consensus       386 ~vil~kN-lpa~t~~~elt~~F~~fG~i~rvllp~~G------~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~  458 (725)
T KOG0110|consen  386 TVILVKN-LPAGTLSEELTEAFLRFGEIGRVLLPPGG------TGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPE  458 (725)
T ss_pred             ceeeecc-CccccccHHHHHHhhcccccceeecCccc------ceeeeeecCccchHHHHHHhchhhhccCccccccChh
Confidence            3334444 66667777777888888877665444221      1389999999999 99999999999998998887753


Q ss_pred             cCCC--Cc---------cc----c-----------ccccc-----cccCCCCC-CCCCEEEEeCCCCCCCCHHHHHHhhc
Q 048615          152 KNMD--PS---------TK----A-----------QNDHM-----RNIRKPSQ-KALRTLFVNNVPLKSNRREALLSHFQ  199 (634)
Q Consensus       152 k~~~--~~---------~~----~-----------~~d~~-----~~~~~~s~-~~~~tLfVgnLp~d~~te~~L~~~Fs  199 (634)
                      ....  +.         ..    .           ..+..     ...+.... ...++|||.||+++ .+.++|..+|.
T Consensus       459 dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~-Tt~e~l~~~F~  537 (725)
T KOG0110|consen  459 DVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFD-TTLEDLEDLFS  537 (725)
T ss_pred             hhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcc-cchhHHHHHHH
Confidence            2211  00         00    0           00000     00000011 12345999999996 99999999999


Q ss_pred             cCCCEEEEEEecCC---------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          200 KFGEVVDIYIPLNS---------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       200 kfG~I~~v~v~~dk---------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +.|.|..|.|...+         |||||+|.+.++|..|++.|+| +|+|+.|.|.++.
T Consensus       538 k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  538 KQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             hcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            99999999887643         8999999999999999999999 8999999999875

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

Probab=99.34  E-value=4.8e-12  Score=134.38  Aligned_cols=60  Identities=27%  Similarity=0.496  Sum_probs=56.3

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ...+|||+.||. +++|.+||.+|++||.|.+|.|++||      +||||.|.++++|.+|+.+++.
T Consensus        33 ~~vKlfVgqIpr-t~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn   98 (510)
T KOG0144|consen   33 SAVKLFVGQIPR-TASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHN   98 (510)
T ss_pred             hhhhheeccCCc-cccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhc
Confidence            356999999999 69999999999999999999999986      6999999999999999999976

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=99.33  E-value=3.1e-13  Score=144.75  Aligned_cols=191  Identities=18%  Similarity=0.222  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCchhhhHHHHHHHHhhhHHHHHHHhhccccc--c-ccCCCchhhHHhhhhhcccc
Q 048615          343 KQELLDQKRNDFRRQLDKLEKQAGGKSDVVSEKAAKRLKVGIAADVAKATARSSDS--T-AAVASPRAEMMADKNKLVDI  419 (634)
Q Consensus       343 KqelL~kq~eeqk~ll~kLek~~~~k~~~~~~~~~ktlk~~~~~~~~k~~~~~~~~--~-~~~~~pk~~~~~~k~~~l~~  419 (634)
                      +|..|...++-+..++.+++++++|+.++.+++ |++|.. .-..++|..+.....  | .-....++..++++ +++|+
T Consensus       225 ~r~el~p~~hg~~~vv~~enan~~m~s~da~ei-~~~l~~-~~ynptk~~~~~~~~fag~~~ptt~~s~n~~s~-e~vd~  301 (526)
T KOG2135|consen  225 ERGELCPTHHGCVPVVSKENANKTMKSEDAAEI-MKTLPP-PGYNPTKPKDEVKAAFAGRCLPTTIKSKNQMSK-ELVDT  301 (526)
T ss_pred             eeccccccccccceeEeeccccccccCCcchhh-hhcCCC-CCcCCCCCCCCccccCccccCCCccccccCCCC-CCCCC
Confidence            777888999999999999999999999999999 888765 334566664432211  2 22233345556777 67888


Q ss_pred             ccCccccchhh----------hcccccccc--------ccc--------CCCCCC--CCCCCCccccccCCCcceEEEcC
Q 048615          420 VLSPSQKVNTA----------MVLQESTSF--------KQQ--------IRPLAP--AGPPFLMNRYKLDNRPTAFRIMP  471 (634)
Q Consensus       420 ~~~~~~k~~~~----------~~lq~~~~~--------~g~--------~~~~~~--~G~~~~~~~~~lDnr~t~l~V~~  471 (634)
                      +++++.+++++          ++++..+..        +.+        ++.+++  +-+++..+++..||++..|.++.
T Consensus       302 ~~dlq~p~qaa~~vtelqrqy~e~~~~Aak~gv~e~g~~Rgel~rgrg~v~grgkg~rrG~gv~g~~~~dhs~l~lek~~  381 (526)
T KOG2135|consen  302 PLDLQKPMQAAEEVTELQRQYTELPLEAAKGGVLESGRGRGELSRGRGAVHGRGKGRRRGRGVPGHAVVDHSPLALEKSP  381 (526)
T ss_pred             HHHhcChHHHHhhhHHHHhhccccCcccccccccccCcccchhhhhhhhhhccccccccCCCCCcchhcccchhhhhccC
Confidence            88887765542          223332211        111        122221  11234567899999999999974


Q ss_pred             CCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHH-HHHHHcCCccCCceeEEEEeCC
Q 048615          472 PLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSA-ERAFLSGKSWQGHDLQFTWLMP  550 (634)
Q Consensus       472 ~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~A-E~A~~~g~~~~g~~l~l~W~~~  550 (634)
                      .   ++.+.++|..||.+||+|+.|.+....             ..|+|||++|++| |.++..|.+|+++-++|-|+.+
T Consensus       382 ~---glnt~a~ln~hfA~fG~i~n~qv~~~~-------------~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnp  445 (526)
T KOG2135|consen  382 F---GLNTIADLNPHFAQFGEIENIQVDYSS-------------LHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNP  445 (526)
T ss_pred             C---CCchHhhhhhhhhhcCccccccccCch-------------hhheeeeeccccccchhccccceecCceeEEEEecC
Confidence            3   776688999999999999999887653             6899999999999 6667789999999999999999


Q ss_pred             CC
Q 048615          551 SS  552 (634)
Q Consensus       551 ~~  552 (634)
                      ..
T Consensus       446 s~  447 (526)
T KOG2135|consen  446 SP  447 (526)
T ss_pred             Cc
Confidence            55

>PF00076 RRM_1: RNA recognition motif

Probab=99.29  E-value=6e-12  Score=102.24  Aligned_cols=64  Identities=34%  Similarity=0.558  Sum_probs=60.2

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      |||+|||++ +++++|+++|++||.|..+.+..+     ++||||+|.++++|.+|++.++| .++|+.|+
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 LYVGNLPPD-VTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTT-SSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCc-CCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            799999995 999999999999999999999885     36999999999999999999999 89999986

(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 ....

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

Probab=99.27  E-value=5.6e-12  Score=114.70  Aligned_cols=73  Identities=26%  Similarity=0.480  Sum_probs=68.3

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..+||||+||.+ +++|++|.++|+++|.|..|-|-.|+      |||||+|.+.++|+.|++-++| .|+.|+|+++|.
T Consensus        35 ~S~tvyVgNlSf-yttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D  113 (153)
T KOG0121|consen   35 KSCTVYVGNLSF-YTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD  113 (153)
T ss_pred             hcceEEEeeeee-eecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence            368999999999 69999999999999999999887775      6999999999999999999999 799999999998


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      -
T Consensus       114 ~  114 (153)
T KOG0121|consen  114 A  114 (153)
T ss_pred             c
Confidence            4

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

Probab=99.27  E-value=2.4e-11  Score=120.47  Aligned_cols=155  Identities=21%  Similarity=0.222  Sum_probs=115.8

Q ss_pred             cccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcc----------
Q 048615           90 SMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPST----------  158 (634)
Q Consensus        90 ~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~----------  158 (634)
                      +..+|.++|.|..+...++   .++||-|||.|.+.+.| .|+..|+|..+.|++|+|.+|..++.--..          
T Consensus        30 L~~LFsqfG~ildI~a~kt---~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~sdii~~~~~~~v~~~~  106 (221)
T KOG4206|consen   30 LYLLFSQFGKILDISAFKT---PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSDSDIIAQAPGTFVEKEK  106 (221)
T ss_pred             HHHHHHhhCCeEEEEecCC---CCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCccchhhccCceeccccC
Confidence            3445666665443322232   35699999999999999 999999999999999999999876521000          


Q ss_pred             c-----cc---cccc----------cccC----CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCe
Q 048615          159 K-----AQ---NDHM----------RNIR----KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SER  215 (634)
Q Consensus       159 ~-----~~---~d~~----------~~~~----~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~  215 (634)
                      +     ..   ...+          .+..    .+..+++..||+.|||.+ .+.+.|..+|.+|.....|+++.. ++.
T Consensus       107 k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~e-s~~e~l~~lf~qf~g~keir~i~~~~~i  185 (221)
T KOG4206|consen  107 KINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSE-SESEMLSDLFEQFPGFKEIRLIPPRSGI  185 (221)
T ss_pred             ccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcc-hhHHHHHHHHhhCcccceeEeccCCCce
Confidence            0     00   0000          0001    122467889999999997 899999999999999999998885 579


Q ss_pred             EEEEeCCHHHHHHHHHcCCC-ccC-CeEEEEEeec
Q 048615          216 AFVQFSKREEAEAALKSPDA-VMG-NRFIKLWWAN  248 (634)
Q Consensus       216 AFV~F~s~e~A~~Ai~~lng-~l~-gR~IkV~wak  248 (634)
                      |||+|.+...|..|...+++ .|- ...++|.|++
T Consensus       186 Afve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~  220 (221)
T KOG4206|consen  186 AFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK  220 (221)
T ss_pred             eEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence            99999999999999999998 443 7889988875

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

Probab=99.22  E-value=2.3e-10  Score=110.07  Aligned_cols=155  Identities=15%  Similarity=0.211  Sum_probs=112.8

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ++|+| +.++--+.++.-+|-++|.|+.+ +.|....  .-.||||+|++..+| +||..-+|..++|-.|+|.++....
T Consensus         9 iyvGN-LP~diRekeieDlFyKyg~i~~i-eLK~r~g--~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr   84 (241)
T KOG0105|consen    9 IYVGN-LPGDIREKEIEDLFYKYGRIREI-ELKNRPG--PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR   84 (241)
T ss_pred             EEecC-CCcchhhccHHHHHhhhcceEEE-EeccCCC--CCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence            34544 44444444555555555554443 2333322  257999999999999 9999999999999999999887543


Q ss_pred             CCCcc--------ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHH
Q 048615          154 MDPST--------KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREE  225 (634)
Q Consensus       154 ~~~~~--------~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~  225 (634)
                      .....        ...+.......+|+.++...|.|.+||+ +-++++|++|..+-|.|....+.+| +++.|+|...++
T Consensus        85 ~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~-SgSWQDLKDHmReaGdvCfadv~rD-g~GvV~~~r~eD  162 (241)
T KOG0105|consen   85 SSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPP-SGSWQDLKDHMREAGDVCFADVQRD-GVGVVEYLRKED  162 (241)
T ss_pred             cccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCC-CCchHHHHHHHHhhCCeeeeeeecc-cceeeeeeehhh
Confidence            11110        0011111222345666778999999999 6999999999999999999998877 589999999999


Q ss_pred             HHHHHHcCCC
Q 048615          226 AEAALKSPDA  235 (634)
Q Consensus       226 A~~Ai~~lng  235 (634)
                      .+-|+..++.
T Consensus       163 MkYAvr~ld~  172 (241)
T KOG0105|consen  163 MKYAVRKLDD  172 (241)
T ss_pred             HHHHHHhhcc
Confidence            9999999986

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

Probab=99.22  E-value=1.2e-11  Score=123.52  Aligned_cols=157  Identities=24%  Similarity=0.334  Sum_probs=116.7

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcccc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      .....+..+..+|..+|.+..+ +|+       .||+||+|++..+| +|+..+||..|.|-.+.|.++...........
T Consensus        10 ~~~~~~~d~E~~f~~yg~~~d~-~mk-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~g~~~   81 (216)
T KOG0106|consen   10 PYRARERDVERFFKGYGKIPDA-DMK-------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGRGRPR   81 (216)
T ss_pred             CCccchhHHHHHHhhccccccc-eee-------cccceeccCchhhhhcccchhcCceecceeeeeecccccccccCCCC
Confidence            3445555555555555554433 222       79999999999999 99999999999999999999886432211111


Q ss_pred             ccc--cccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-cc
Q 048615          161 QND--HMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VM  237 (634)
Q Consensus       161 ~~d--~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l  237 (634)
                      .++  .......+....++.|+|.+++.. +.+.+|.++|.++|.+....+  ..+++||+|...++|..||..+++ .+
T Consensus        82 ~g~r~~~~~~~~~p~~s~~r~~~~~~~~r-~~~qdl~d~~~~~g~~~~~~~--~~~~~~v~Fs~~~da~ra~~~l~~~~~  158 (216)
T KOG0106|consen   82 GGDRRSDSRRYRPPSRTHFRLIVRNLSLR-VSWQDLKDHFRPAGEVTYVDA--RRNFAFVEFSEQEDAKRALEKLDGKKL  158 (216)
T ss_pred             CCCccchhhccCCcccccceeeeccchhh-hhHHHHhhhhcccCCCchhhh--hccccceeehhhhhhhhcchhccchhh
Confidence            110  001112333466899999999995 999999999999999965544  567999999999999999999999 89


Q ss_pred             CCeEEEEEeecC
Q 048615          238 GNRFIKLWWANR  249 (634)
Q Consensus       238 ~gR~IkV~wak~  249 (634)
                      .++.|.+...-.
T Consensus       159 ~~~~l~~~~~~~  170 (216)
T KOG0106|consen  159 NGRRISVEKNSR  170 (216)
T ss_pred             cCceeeecccCc
Confidence            999999965543

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.21  E-value=5e-11  Score=121.91  Aligned_cols=72  Identities=24%  Similarity=0.310  Sum_probs=66.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC---CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS---ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk---g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|||+|||+. +++++|+++|+.||.|.+|+|+.++   +||||+|.+.++|..|+. |+| .|.||.|+|.++..
T Consensus         4 ~rtVfVgNLs~~-tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          4 VRTVKVSNVSLK-ATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED   79 (260)
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence            479999999995 9999999999999999999998864   799999999999999996 888 89999999999863

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

Probab=99.20  E-value=4.2e-11  Score=114.38  Aligned_cols=76  Identities=21%  Similarity=0.352  Sum_probs=70.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      +++|||+||+.. +++.+|...|..||.|..|.|..+ ++||||+|++..+|+.|+..|+| .|.|..|+|.+.+....
T Consensus        10 ~~kVYVGnL~~~-a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r   87 (195)
T KOG0107|consen   10 NTKVYVGNLGSR-ATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPR   87 (195)
T ss_pred             CceEEeccCCCC-cchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcc
Confidence            689999999995 999999999999999999999886 48999999999999999999999 89999999999975544

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

Probab=99.18  E-value=3.2e-11  Score=119.99  Aligned_cols=73  Identities=26%  Similarity=0.457  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      .++||||+|+++ +..+.|+++|++||+|++..|+.|+      ||+||+|.+.++|.+|++..+-+|+||+-.|+.|.-
T Consensus        12 ~TKifVggL~w~-T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   12 FTKIFVGGLAWE-THKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEEcCcccc-cchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhhh
Confidence            579999999996 8999999999999999999999875      799999999999999999999999999999999864

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

Probab=99.17  E-value=4.5e-11  Score=123.52  Aligned_cols=72  Identities=31%  Similarity=0.437  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      -++|+|.|||+ ...+.||+.+|.+||.|.+|.|+.+    |||+||+|++.++|++|...|+| ++.||+|.|+-|.
T Consensus        96 pkRLhVSNIPF-rFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT  172 (376)
T KOG0125|consen   96 PKRLHVSNIPF-RFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT  172 (376)
T ss_pred             CceeEeecCCc-cccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence            46999999999 4999999999999999999999985    57999999999999999999999 8999999999885

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

Probab=99.14  E-value=1.2e-10  Score=117.41  Aligned_cols=93  Identities=24%  Similarity=0.298  Sum_probs=76.1

Q ss_pred             CEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCe
Q 048615          141 GKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SER  215 (634)
Q Consensus       141 GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~  215 (634)
                      .|+|.|+.+...+.+.                  ..++||||-|... -.|++++.+|..||.|.+|.|.+.     +||
T Consensus         2 nrpiqvkpadsesrg~------------------~drklfvgml~kq-q~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGC   62 (371)
T KOG0146|consen    2 NRPIQVKPADSESRGG------------------DDRKLFVGMLNKQ-QSEDDVRRLFQPFGNIEECTVLRGPDGNSKGC   62 (371)
T ss_pred             CCCccccccccccCCc------------------cchhhhhhhhccc-ccHHHHHHHhcccCCcceeEEecCCCCCCCCc
Confidence            4678888776543211                  1479999999995 899999999999999999999884     589


Q ss_pred             EEEEeCCHHHHHHHHHcCCC--ccCC--eEEEEEeecCCCC
Q 048615          216 AFVQFSKREEAEAALKSPDA--VMGN--RFIKLWWANRDSI  252 (634)
Q Consensus       216 AFV~F~s~e~A~~Ai~~lng--~l~g--R~IkV~wak~~~~  252 (634)
                      |||.|.++.+|..||..++|  .+-|  ..|.|.|+.-++.
T Consensus        63 AFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkE  103 (371)
T KOG0146|consen   63 AFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKE  103 (371)
T ss_pred             eEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHH
Confidence            99999999999999999999  4554  5699999865543

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

Probab=99.13  E-value=7.6e-11  Score=115.14  Aligned_cols=78  Identities=31%  Similarity=0.523  Sum_probs=72.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|-|-||.+. ++.++|+.+|++||.|.+|.|+.|+      |||||.|....+|+.|+.+|+| +|+||.|+|.+
T Consensus        11 ~gm~SLkVdNLTyR-Tspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~   89 (256)
T KOG4207|consen   11 EGMTSLKVDNLTYR-TSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQM   89 (256)
T ss_pred             ccceeEEecceecc-CCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehh
Confidence            34689999999995 9999999999999999999999985      7999999999999999999999 99999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      |+-...
T Consensus        90 arygr~   95 (256)
T KOG4207|consen   90 ARYGRP   95 (256)
T ss_pred             hhcCCC
Confidence            976554

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

Probab=99.13  E-value=1.3e-10  Score=116.10  Aligned_cols=75  Identities=24%  Similarity=0.442  Sum_probs=70.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|.|.||+.+ +++++|+++|.+||.|..|.|.+|+      |||||.|.++++|.+||..|+| -+++-.|+|.|+
T Consensus       188 D~~tvRvtNLsed-~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  188 DEATVRVTNLSED-MREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             ccceeEEecCccc-cChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            4678999999997 9999999999999999999999986      6999999999999999999999 589999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      +|.
T Consensus       267 kP~  269 (270)
T KOG0122|consen  267 KPS  269 (270)
T ss_pred             CCC
Confidence            864

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

Probab=99.13  E-value=9.6e-11  Score=118.03  Aligned_cols=77  Identities=21%  Similarity=0.347  Sum_probs=70.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +..|.|||..||.+ +.+.+|..+|-.||.|++.+|..|+      .|+||.|++..+|+.||.+||| .|+-++|||..
T Consensus       283 PeGCNlFIYHLPQE-FgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL  361 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQE-FGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL  361 (371)
T ss_pred             CCcceEEEEeCchh-hccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence            45799999999997 9999999999999999999988876      4999999999999999999999 79999999998


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      .++..
T Consensus       362 KRPkd  366 (371)
T KOG0146|consen  362 KRPKD  366 (371)
T ss_pred             cCccc
Confidence            87543

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.12  E-value=1.8e-10  Score=94.49  Aligned_cols=64  Identities=30%  Similarity=0.523  Sum_probs=58.2

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      |||+|||+. +++++|+++|+.||.|..|++..++     ++|||+|.+.++|..|++.+++ .|+||.|+
T Consensus         1 v~i~nlp~~-~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPS-TTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT---HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCC-CCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            799999995 9999999999999999999999874     7999999999999999999998 89999885

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 ....

>PF13893 RRM_5: RNA recognition motif

Probab=99.10  E-value=2.5e-10  Score=90.22  Aligned_cols=54  Identities=35%  Similarity=0.491  Sum_probs=50.8

Q ss_pred             HHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          194 LLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       194 L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      |.++|++||.|.+|.+.+++ ++|||+|.+.++|..|++.++| .++|++|+|.|+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            68899999999999999988 9999999999999999999999 899999999996

(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 ....

>smart00362 RRM_2 RNA recognition motif

Probab=99.08  E-value=5e-10  Score=89.55  Aligned_cols=66  Identities=36%  Similarity=0.626  Sum_probs=62.1

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      +|||+|||.. +++++|+++|.+||.|..+.+..++    ++|||+|.+.++|..|+..+++ .+.|+.|+|
T Consensus         1 ~v~i~~l~~~-~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPD-VTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CEEEcCCCCc-CCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            5899999995 9999999999999999999999876    8999999999999999999998 799999887

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

Probab=99.07  E-value=3.4e-10  Score=123.86  Aligned_cols=166  Identities=19%  Similarity=0.266  Sum_probs=114.6

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcc---
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPST---  158 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~---  158 (634)
                      .+-+++.++-+|..+|.|.++..+++-.++.++|||||+|.+.++| +|+..|||.+|-||.|+|..-..+-.....   
T Consensus       288 fNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~~~~a~~~  367 (549)
T KOG0147|consen  288 FNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVDTKEAAVT  367 (549)
T ss_pred             cCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeeccccccccc
Confidence            3456677777777777777777777776778899999999999999 999999999999999998643322100000   


Q ss_pred             --------------cc-------------------------------------ccccccccC-CCC------CCCCCEEE
Q 048615          159 --------------KA-------------------------------------QNDHMRNIR-KPS------QKALRTLF  180 (634)
Q Consensus       159 --------------~~-------------------------------------~~d~~~~~~-~~s------~~~~~tLf  180 (634)
                                    ..                                     .....+... -|.      ..+...+.
T Consensus       368 ~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~i~t~C~l  447 (549)
T KOG0147|consen  368 QFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFDIPTQCLL  447 (549)
T ss_pred             ccccchhhccccccccccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccCCccHHHH
Confidence                          00                                     000000000 000      01122233


Q ss_pred             EeCC-CCCC-----CC---HHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          181 VNNV-PLKS-----NR---REALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       181 VgnL-p~d~-----~t---e~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +.|+ .+..     ++   .+++.+-+.+||.|..|.|.++. ||.||.|.+.+.|..|+.+|+| .|.||.|...|-.
T Consensus       448 L~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~  526 (549)
T KOG0147|consen  448 LSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLP  526 (549)
T ss_pred             HhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEee
Confidence            3333 1100     11   35566777999999999999887 8999999999999999999999 8999999999874

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

Probab=99.07  E-value=6.8e-10  Score=106.90  Aligned_cols=77  Identities=22%  Similarity=0.353  Sum_probs=69.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC---CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS---ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk---g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ..++|||+|||.+ +.+.+|.++|.+||.|..|.+...+   .||||+|++..+|+.||..-+| .++|..|+|.|++..
T Consensus         5 ~~~~iyvGNLP~d-iRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg   83 (241)
T KOG0105|consen    5 NSRRIYVGNLPGD-IREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG   83 (241)
T ss_pred             ccceEEecCCCcc-hhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCC
Confidence            3689999999997 9999999999999999999876543   5999999999999999999999 799999999999765


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      +.
T Consensus        84 r~   85 (241)
T KOG0105|consen   84 RS   85 (241)
T ss_pred             Cc
Confidence            43

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

Probab=99.04  E-value=1.8e-10  Score=113.38  Aligned_cols=77  Identities=31%  Similarity=0.483  Sum_probs=72.3

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++||||+|..+ +++.-|...|-+||.|.+|.++.|      ++||||+|...++|.+||..||+ .|.||.|+|++|+
T Consensus        10 KrtlYVGGlade-VtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak   88 (298)
T KOG0111|consen   10 KRTLYVGGLADE-VTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK   88 (298)
T ss_pred             ceeEEeccchHH-HHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence            589999999997 999999999999999999999875      57999999999999999999999 8999999999999


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      |.+..
T Consensus        89 P~kik   93 (298)
T KOG0111|consen   89 PEKIK   93 (298)
T ss_pred             Ccccc
Confidence            87764

>PLN03213 repressor of silencing 3; Provisional

Probab=99.00  E-value=8.6e-10  Score=118.78  Aligned_cols=73  Identities=19%  Similarity=0.196  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCH--HHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SERAFVQFSKR--EEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~--e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ..+||||||+++ +++++|+.+|+.||.|.+|.|++.  ++||||+|...  .++.+||..|+| .++||.|+|.-|++
T Consensus        10 gMRIYVGNLSyd-VTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         10 GVRLHVGGLGES-VGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             ceEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            579999999996 999999999999999999999975  47999999987  789999999999 89999999999964

>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=98.97  E-value=3e-09  Score=85.48  Aligned_cols=68  Identities=37%  Similarity=0.569  Sum_probs=63.2

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +|+|+|||.. +++++|+++|..||.|..+.+..+     .++|||+|.+.++|..|+..+++ .++|+.|.|.|
T Consensus         1 ~i~i~~l~~~-~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPD-VTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCc-cCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            4899999995 999999999999999999999886     47999999999999999999999 69999999976

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).

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

Probab=98.96  E-value=1.6e-09  Score=113.09  Aligned_cols=79  Identities=27%  Similarity=0.460  Sum_probs=72.1

Q ss_pred             CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC--ccCCeEEEEEee
Q 048615          170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA--VMGNRFIKLWWA  247 (634)
Q Consensus       170 ~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng--~l~gR~IkV~wa  247 (634)
                      +|.+...++|||++|-.. +++.+|++||.+||+|..|++...++||||+|.++++|+.|....-.  +|+|++|+|.|+
T Consensus       222 pPeD~~I~tLyIg~l~d~-v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg  300 (377)
T KOG0153|consen  222 PPEDTSIKTLYIGGLNDE-VLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWG  300 (377)
T ss_pred             CCcccceeEEEecccccc-hhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeC
Confidence            345566789999999885 99999999999999999999999999999999999999999987655  799999999999


Q ss_pred             cC
Q 048615          248 NR  249 (634)
Q Consensus       248 k~  249 (634)
                      ++
T Consensus       301 ~~  302 (377)
T KOG0153|consen  301 RP  302 (377)
T ss_pred             CC
Confidence            87

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.96  E-value=2.2e-09  Score=108.42  Aligned_cols=70  Identities=17%  Similarity=0.150  Sum_probs=63.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC---CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS---ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk---g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..+|||+||++. +++++|+++|+.||.|.+|+|+++.   +||||+|.+.++|+.|+ .|+| .|.+++|.|.-.
T Consensus         5 g~TV~V~NLS~~-tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~   78 (243)
T PLN03121          5 GYTAEVTNLSPK-ATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRW   78 (243)
T ss_pred             ceEEEEecCCCC-CCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeC
Confidence            479999999995 9999999999999999999999975   59999999999999999 5777 899999998754

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

Probab=98.94  E-value=1.3e-09  Score=103.45  Aligned_cols=81  Identities=9%  Similarity=0.161  Sum_probs=70.3

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.+.|+| +....+++.+..+|.++|.|..+.+++++.++.++|||||+|.+.++| .||..|||..|.||+|+|.++..
T Consensus        35 ~~lfVgn-L~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~  113 (144)
T PLN03134         35 TKLFIGG-LSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAND  113 (144)
T ss_pred             CEEEEeC-CCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCc
Confidence            3345555 566778999999999999999888888888888899999999999999 99999999999999999999986


Q ss_pred             cCC
Q 048615          152 KNM  154 (634)
Q Consensus       152 k~~  154 (634)
                      +..
T Consensus       114 ~~~  116 (144)
T PLN03134        114 RPS  116 (144)
T ss_pred             CCC
Confidence            653

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

Probab=98.91  E-value=3.8e-09  Score=105.11  Aligned_cols=73  Identities=32%  Similarity=0.445  Sum_probs=68.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|.+||.|..|.|..++      +||||+|.+.++|..|+..+++ .|.||.|+|.++.
T Consensus       115 ~~~l~v~nL~~~-~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYD-VTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCC-CCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            589999999996 9999999999999999999998875      7999999999999999999998 8999999999986


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      .
T Consensus       194 ~  194 (306)
T COG0724         194 P  194 (306)
T ss_pred             c
Confidence            4

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

Probab=98.91  E-value=5.6e-09  Score=92.17  Aligned_cols=73  Identities=25%  Similarity=0.422  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      -++-|||.|||++ ++.+++-++|.+||.|..|+|-..   +|-|||.|++..+|.+|+..|.| .+++|.+.|-|-.
T Consensus        17 vnriLyirNLp~~-ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq   93 (124)
T KOG0114|consen   17 VNRILYIRNLPFK-ITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ   93 (124)
T ss_pred             hheeEEEecCCcc-ccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence            4689999999995 999999999999999999999775   47999999999999999999999 7999999998764

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

Probab=98.90  E-value=1e-08  Score=108.83  Aligned_cols=161  Identities=22%  Similarity=0.264  Sum_probs=122.3

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccc
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQ  161 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~  161 (634)
                      ..-+.+.++.+||-+|+|..+++...|.+     -|.|.+.+...| -|+..|+|.+|.|++|||.+++......+....
T Consensus       308 ~~VT~d~LftlFgvYGdVqRVkil~nkkd-----~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~egq  382 (492)
T KOG1190|consen  308 EAVTPDVLFTLFGVYGDVQRVKILYNKKD-----NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPREGQ  382 (492)
T ss_pred             hccchhHHHHHHhhhcceEEEEeeecCCc-----ceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCCCCC
Confidence            34567788999999999888888776643     588999999999 999999999999999999988765421111000


Q ss_pred             cc------c-----ccccCC------CCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec--CCCeEEEEeCC
Q 048615          162 ND------H-----MRNIRK------PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSK  222 (634)
Q Consensus       162 ~d------~-----~~~~~~------~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s  222 (634)
                      .|      .     .+..++      .--++..+|.+.|||. ++++++|+.+|..-|..++.....  ++.+|++++.+
T Consensus       383 ~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~-svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~s  461 (492)
T KOG1190|consen  383 EDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPP-SVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLES  461 (492)
T ss_pred             ccccccccCCCCchhhccCcccccccccCCchhheeeccCCc-ccchhHHHHhhhcCCceEEeeeecCCCcceeecccCC
Confidence            00      0     000000      0113456999999999 599999999999999887765543  66799999999


Q ss_pred             HHHHHHHHHcCCC-ccC-CeEEEEEeecC
Q 048615          223 REEAEAALKSPDA-VMG-NRFIKLWWANR  249 (634)
Q Consensus       223 ~e~A~~Ai~~lng-~l~-gR~IkV~wak~  249 (634)
                      .++|..|+..++. .++ +..|||+|.+.
T Consensus       462 veeA~~ali~~hnh~lgen~hlRvSFSks  490 (492)
T KOG1190|consen  462 VEEAIQALIDLHNHYLGENHHLRVSFSKS  490 (492)
T ss_pred             hhHhhhhccccccccCCCCceEEEEeecc
Confidence            9999999999987 555 56899999873

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

Probab=98.88  E-value=4.9e-09  Score=107.50  Aligned_cols=76  Identities=22%  Similarity=0.378  Sum_probs=70.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +-+||||+-|+++ ++|..|+..|++||.|..|+|+.++      |||||+|.+..+...|++..+| .|+||.|-|++-
T Consensus       100 Py~TLFv~RLnyd-T~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE  178 (335)
T KOG0113|consen  100 PYKTLFVARLNYD-TSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE  178 (335)
T ss_pred             ccceeeeeecccc-ccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence            4689999999997 9999999999999999999999974      7999999999999999999999 899999999998


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      +...
T Consensus       179 RgRT  182 (335)
T KOG0113|consen  179 RGRT  182 (335)
T ss_pred             cccc
Confidence            6443

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

Probab=98.88  E-value=2.8e-09  Score=98.03  Aligned_cols=72  Identities=22%  Similarity=0.393  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .--|||.++..+ .+++++.+.|..||+|.+|.+..|+      |||+|+|.+.++|++|+..+|| .|.|..|.|+|+-
T Consensus        72 GwIi~VtgvHeE-atEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F  150 (170)
T KOG0130|consen   72 GWIIFVTGVHEE-ATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF  150 (170)
T ss_pred             eEEEEEeccCcc-hhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence            458999999997 9999999999999999999998875      6999999999999999999999 8999999999994

>smart00360 RRM RNA recognition motif

Probab=98.88  E-value=5.8e-09  Score=82.88  Aligned_cols=64  Identities=31%  Similarity=0.480  Sum_probs=58.3

Q ss_pred             EeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          181 VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       181 VgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      |+|||.. +++++|+.+|++||.|..+.+..++      ++|||+|.+.++|..|+..+++ .++|+.|+|.
T Consensus         1 i~~l~~~-~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPD-VTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcc-cCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            5789995 9999999999999999999998864      5999999999999999999998 7899998873

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

Probab=98.87  E-value=2.3e-07  Score=99.27  Aligned_cols=150  Identities=17%  Similarity=0.183  Sum_probs=108.0

Q ss_pred             eecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC---------CC---------
Q 048615           96 RIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM---------DP---------  156 (634)
Q Consensus        96 ~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~---------~~---------  156 (634)
                      ++|+|..+...-+. +++.+|+|.|+|+++|.+ +|+..||...+.||+|.|+.-.....         ..         
T Consensus        68 kvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q~~~~~~~~r~g~~~f~~~~~~  146 (608)
T KOG4212|consen   68 KVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQRDQYGRIVRDGGGGFGGGGGV  146 (608)
T ss_pred             hcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchhhhhhhheeeccCcccccCcce
Confidence            44556555444444 346799999999999999 99999999999999999974433110         00         


Q ss_pred             ------------------cccccccccccc----------------------------C---CCCCCCCCEEEEeCCCCC
Q 048615          157 ------------------STKAQNDHMRNI----------------------------R---KPSQKALRTLFVNNVPLK  187 (634)
Q Consensus       157 ------------------~~~~~~d~~~~~----------------------------~---~~s~~~~~tLfVgnLp~d  187 (634)
                                        +.....|.++..                            +   .-.++-..++||.||.+.
T Consensus       147 q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~  226 (608)
T KOG4212|consen  147 QGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYK  226 (608)
T ss_pred             ecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccc
Confidence                              000000100000                            0   012233568999999995


Q ss_pred             CCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          188 SNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       188 ~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                       +....|.+.|.--|.|..|.+-.|+     +|+.|+|+++-+|-.||..+++ -+..|+..+...
T Consensus       227 -vg~~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g~~~~~~~~Rl~  291 (608)
T KOG4212|consen  227 -VGNKKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQGLFDRRMTVRLD  291 (608)
T ss_pred             -cchHHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhccCCCccccceeecc
Confidence             9999999999999999998877665     6999999999999999999987 566777777664

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

Probab=98.87  E-value=8.7e-09  Score=111.76  Aligned_cols=155  Identities=21%  Similarity=0.275  Sum_probs=115.6

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....|+.++..+|+-++ |.+.  +-.+.+++.+|-|||+|.+.|++ +|++ .+-..+.-|.|.|..+.........+
T Consensus        18 LPwsat~~ei~~Ff~~~~-I~~~--~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e~d~~~~   93 (510)
T KOG4211|consen   18 LPWSATEKEILDFFSNCG-IENL--EIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAEADWVMR   93 (510)
T ss_pred             CCccccHHHHHHHHhcCc-eeEE--EEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCcccccccc
Confidence            345678888888886554 3333  34455567799999999999999 9995 48888999999999887655432222


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE-EEEecCC-----CeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNS-----ERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~-v~v~~dk-----g~AFV~F~s~e~A~~Ai~~l  233 (634)
                      ..+..       +......|.+++||+ .|++++|.++|+..=-|.+ |.++.++     +-|||+|++.+.|++|+...
T Consensus        94 ~~g~~-------s~~~d~vVRLRGLPf-scte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rh  165 (510)
T KOG4211|consen   94 PGGPN-------SSANDGVVRLRGLPF-SCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRH  165 (510)
T ss_pred             CCCCC-------CCCCCceEEecCCCc-cCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHH
Confidence            21111       112357899999999 5999999999998743333 3344443     47999999999999999887


Q ss_pred             CCccCCeEEEEEee
Q 048615          234 DAVMGNRFIKLWWA  247 (634)
Q Consensus       234 ng~l~gR~IkV~wa  247 (634)
                      .-.|+.|.|.|+-+
T Consensus       166 re~iGhRYIEvF~S  179 (510)
T KOG4211|consen  166 RENIGHRYIEVFRS  179 (510)
T ss_pred             HHhhccceEEeehh
Confidence            77899999999887

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

Probab=98.76  E-value=1.7e-09  Score=103.98  Aligned_cols=72  Identities=18%  Similarity=0.349  Sum_probs=67.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +.-|||||||++ +||.+|..+|++||+|++|.+++|+      ||||..|++-.+-..|+..+|| .|.||.|+|+-..
T Consensus        35 sA~Iyiggl~~~-LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~  113 (219)
T KOG0126|consen   35 SAYIYIGGLPYE-LTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS  113 (219)
T ss_pred             ceEEEECCCccc-ccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence            468999999997 9999999999999999999999986      6999999999999999999999 7999999998653

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

Probab=98.75  E-value=2.8e-08  Score=98.88  Aligned_cols=138  Identities=20%  Similarity=0.292  Sum_probs=101.8

Q ss_pred             CcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc-
Q 048615           74 DLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ-  151 (634)
Q Consensus        74 ~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~-  151 (634)
                      .+.|+| +....+.+.+..+|..+|.+..+..+.++..+.++|||||+|.+.++| .|+..|+|..|.||+|+|.+... 
T Consensus       117 ~l~v~n-L~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~  195 (306)
T COG0724         117 TLFVGN-LPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPA  195 (306)
T ss_pred             eEEEeC-CCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccc
Confidence            334444 556788899999999999987777777777778899999999999999 99999999999999999999653 


Q ss_pred             ---cCCCCcc--ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC
Q 048615          152 ---KNMDPST--KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS  213 (634)
Q Consensus       152 ---k~~~~~~--~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk  213 (634)
                         +......  ....................+++.+++.. +....+..+|..+|.+..+.+....
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  261 (306)
T COG0724         196 SQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLK-TAEEELADLFKSRGDIVRASLPPSK  261 (306)
T ss_pred             cccccccccccchhhhccccccccccccccceeeccccccc-cchhHHHHhccccccceeeeccCCC
Confidence               1111100  00000000011112244689999999995 9999999999999999777766554

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

Probab=98.74  E-value=1.6e-08  Score=111.04  Aligned_cols=75  Identities=25%  Similarity=0.467  Sum_probs=70.4

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      +.|||||||++ +++++|..+|+..|.|.+++++.|+      ||||++|.+.++|..|++.||| .++||+|+|.|+..
T Consensus        19 ~~v~vgnip~~-~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   19 SSVFVGNIPYE-GSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             cceEecCCCCc-ccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            89999999996 9999999999999999999999885      6999999999999999999999 89999999999965


Q ss_pred             CCC
Q 048615          250 DSI  252 (634)
Q Consensus       250 ~~~  252 (634)
                      +..
T Consensus        98 ~~~  100 (435)
T KOG0108|consen   98 RKN  100 (435)
T ss_pred             cch
Confidence            544

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

Probab=98.73  E-value=1.4e-08  Score=114.67  Aligned_cols=74  Identities=30%  Similarity=0.520  Sum_probs=70.2

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .+|||||+|+. ++++.+|.++|+.||.|.+|.++..++||||.+..+.+|.+|+++|.. .+.++.|+|.|+...
T Consensus       421 SrTLwvG~i~k-~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~  495 (894)
T KOG0132|consen  421 SRTLWVGGIPK-NVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK  495 (894)
T ss_pred             eeeeeeccccc-hhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence            58999999999 599999999999999999999999999999999999999999999998 699999999999543

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

Probab=98.70  E-value=5.2e-09  Score=102.45  Aligned_cols=72  Identities=15%  Similarity=0.186  Sum_probs=66.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      ++.-++-+++.-||.++|.|..+.|+.++.+..++|||||-|..+.+| +|+..|+|.+|+||.|+|++|.-.
T Consensus        21 LTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~aryg   93 (256)
T KOG4207|consen   21 LTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYG   93 (256)
T ss_pred             eeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcC
Confidence            666788999999999999999999999999999999999999999999 999999999999999999988643

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

Probab=98.70  E-value=1.5e-08  Score=97.74  Aligned_cols=72  Identities=31%  Similarity=0.383  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ..||||+||+.. ++++.|.++|-+.|.|++++|++++      |||||+|.++++|+-|++-|+. .|-||+|+|.-+.
T Consensus         9 d~tiyvgnld~k-vs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen    9 DATLYVGNLDEK-VSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             CceEEEecCCHH-HHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            469999999995 9999999999999999999999865      7999999999999999999998 6999999999764

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

Probab=98.69  E-value=9.4e-08  Score=101.61  Aligned_cols=163  Identities=17%  Similarity=0.201  Sum_probs=118.4

Q ss_pred             ccccccccceeeecceeeeeccccccCCCcCce-EEEEcCCHHHH-HHHhccCCceeCCEE--EEEccCcc---------
Q 048615           85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSL-DYLENETKEDR-EALPSLQGSYRRGKR--IIEGDAIQ---------  151 (634)
Q Consensus        85 ~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~Gf-gFVeF~~~e~A-~Ai~~mnG~~l~GR~--I~V~~a~~---------  151 (634)
                      -|.|-+..+|.++|-|..+.- -+|    ..|| |.|.|.+.+.| .|-..|+|+.|....  +||+++.-         
T Consensus       162 VslDVLHqvFS~fG~VlKIiT-F~K----nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynn  236 (492)
T KOG1190|consen  162 VSLDVLHQVFSKFGFVLKIIT-FTK----NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNN  236 (492)
T ss_pred             eEHHHHHHHHhhcceeEEEEE-Eec----ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccc
Confidence            567778888999997665411 122    2565 89999999999 999999999886543  55654432         


Q ss_pred             -cCCC--Cccccccc---------------------------------cccccCCCCCC-CCCEEEEeCCCCCCCCHHHH
Q 048615          152 -KNMD--PSTKAQND---------------------------------HMRNIRKPSQK-ALRTLFVNNVPLKSNRREAL  194 (634)
Q Consensus       152 -k~~~--~~~~~~~d---------------------------------~~~~~~~~s~~-~~~tLfVgnLp~d~~te~~L  194 (634)
                       |+..  .+.-..++                                 .... ++...+ .++.|.|.||..+.+|.+.|
T Consensus       237 dkSRDyTnp~LP~gd~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~-~~~~~~~~n~vllvsnln~~~VT~d~L  315 (492)
T KOG1190|consen  237 DKSRDYTNPDLPVGDGQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAAD-GKIESPSANVVLLVSNLNEEAVTPDVL  315 (492)
T ss_pred             cccccccCCCCCCCccccccchhhhccccccccccCCcccCCccchhhcccc-cccccCCCceEEEEecCchhccchhHH
Confidence             2210  00000000                                 0000 111111 27899999999888999999


Q ss_pred             HHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCCC
Q 048615          195 LSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSIP  253 (634)
Q Consensus       195 ~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~~  253 (634)
                      ..+|+-||.|.+|.|..++ .-|+|+|.+...|+.|+..|+| .+.|+.|+|.+.|....+
T Consensus       316 ftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vq  376 (492)
T KOG1190|consen  316 FTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQ  376 (492)
T ss_pred             HHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcccc
Confidence            9999999999999999876 4899999999999999999999 799999999999866543

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

Probab=98.68  E-value=4.6e-08  Score=96.87  Aligned_cols=152  Identities=16%  Similarity=0.182  Sum_probs=102.9

Q ss_pred             ccccccccccceeeecceeeeec-cccccCCCcCceEEEEcCCHHHH-HHHhccCCceeC---CEEEEEccCcccCC---
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSN-VKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRR---GKRIIEGDAIQKNM---  154 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~-~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~---GR~I~V~~a~~k~~---  154 (634)
                      .+.--.++..+|.++-+...+.. +..|.+...+-+|||.|.+..+| .|+..|||..|+   +..+++..+++...   
T Consensus        44 ~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~kr  123 (284)
T KOG1457|consen   44 NDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRKR  123 (284)
T ss_pred             cccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCccccc
Confidence            34455667778877755443322 12222223457999999999999 999999999996   56788887764321   


Q ss_pred             ----C-Ccc-c----------cc---------c--c-----------c----cc-----------------------ccC
Q 048615          155 ----D-PST-K----------AQ---------N--D-----------H----MR-----------------------NIR  169 (634)
Q Consensus       155 ----~-~~~-~----------~~---------~--d-----------~----~~-----------------------~~~  169 (634)
                          . +.. .          ..         +  +           .    ..                       ...
T Consensus       124 ~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a~a~l~ks~q~  203 (284)
T KOG1457|consen  124 RKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSANAHLEKSSQG  203 (284)
T ss_pred             CCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCCcccchhhhhhcc
Confidence                0 000 0          00         0  0           0    00                       001


Q ss_pred             CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCC--eEEEEeCCHHHHHHHHHcCCC
Q 048615          170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--RAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       170 ~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg--~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ....+...||||.||.++ ++|++|+.+|+.|-....++|....|  .|||+|++.+.|..||..++|
T Consensus       204 ~~~~~acstlfianl~~~-~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg  270 (284)
T KOG1457|consen  204 GSGARACSTLFIANLGPN-CTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQG  270 (284)
T ss_pred             cccchhhhhHhhhccCCC-CCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhc
Confidence            122244679999999995 99999999999998777666644333  899999999999999999988

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.68  E-value=1.7e-07  Score=96.32  Aligned_cols=77  Identities=22%  Similarity=0.279  Sum_probs=67.1

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCce
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHD  542 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~  542 (634)
                      .++|+| ++||...+ +++|++||..||+|.+|++..+..          ..+++||+|.+..+|+.|+. +|..|.|+.
T Consensus         4 ~rtVfV-gNLs~~tT-E~dLrefFS~~G~I~~V~I~~d~~----------~~GfAFVtF~d~eaAe~AllLnG~~l~gr~   71 (260)
T PLN03120          4 VRTVKV-SNVSLKAT-ERDIKEFFSFSGDIEYVEMQSENE----------RSQIAYVTFKDPQGAETALLLSGATIVDQS   71 (260)
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeecCC----------CCCEEEEEeCcHHHHHHHHHhcCCeeCCce
Confidence            579999 89999987 999999999999999999975431          13799999999999999985 599999999


Q ss_pred             eEEEEeCCCC
Q 048615          543 LQFTWLMPSS  552 (634)
Q Consensus       543 l~l~W~~~~~  552 (634)
                      |++.|.....
T Consensus        72 V~Vt~a~~~~   81 (260)
T PLN03120         72 VTITPAEDYQ   81 (260)
T ss_pred             EEEEeccCCC
Confidence            9999977543

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

Probab=98.63  E-value=3.7e-08  Score=100.86  Aligned_cols=71  Identities=24%  Similarity=0.399  Sum_probs=66.2

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .+|||||||.+ .++.+|+.+|++||+|++|.|+++  ||||..++...|+.||+.|+| .|+|..|.|.-++..
T Consensus         3 ~KLFIGNLp~~-~~~~elr~lFe~ygkVlECDIvKN--YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK   74 (346)
T KOG0109|consen    3 VKLFIGNLPRE-ATEQELRSLFEQYGKVLECDIVKN--YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK   74 (346)
T ss_pred             cchhccCCCcc-cchHHHHHHHHhhCceEeeeeecc--cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence            47999999996 999999999999999999999976  999999999999999999999 899999999977644

>PF00076 RRM_1: RNA recognition motif

Probab=98.63  E-value=6.1e-08  Score=78.52  Aligned_cols=68  Identities=22%  Similarity=0.434  Sum_probs=57.9

Q ss_pred             EEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCceeE
Q 048615          467 FRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDLQ  544 (634)
Q Consensus       467 l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l~  544 (634)
                      |+| ++||.+++ +++|+++|.+||.|.+|.+....        ......+|+|+|.++.+|++|+.  +|..|.|+.|+
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 LYV-GNLPPDVT-EEELRDFFSQFGKIESIKVMRNS--------SGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEE-ESETTTSS-HHHHHHHHHTTSTEEEEEEEEET--------TSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEE-cCCCCcCC-HHHHHHHHHHhhhcccccccccc--------cccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            678 89999998 99999999999999999988751        11123899999999999999996  59999998875

(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 ....

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

Probab=98.62  E-value=2.7e-07  Score=96.54  Aligned_cols=170  Identities=17%  Similarity=0.132  Sum_probs=121.4

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccc---------cCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEE
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEK---------IDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRI  144 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k---------~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I  144 (634)
                      ++| +++..+-|.+.+..+|.+.|-  +++++.+.         -.|+.+|=|.+.|-..|++ -|+..|++..|.|+.|
T Consensus       137 VYV-sgLP~DiT~dE~~~~~sKcGi--I~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~  213 (382)
T KOG1548|consen  137 VYV-SGLPLDITVDEFAEVMSKCGI--IMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKL  213 (382)
T ss_pred             EEe-cCCCCcccHHHHHHHHHhcce--EeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEE
Confidence            344 336677888888888888774  33343222         1367899999999999999 9999999999999999


Q ss_pred             EEccCcccCCC---C-------c----------cccccccccccCCCCCCCCCEEEEeCCC--CCC-CC-------HHHH
Q 048615          145 IEGDAIQKNMD---P-------S----------TKAQNDHMRNIRKPSQKALRTLFVNNVP--LKS-NR-------REAL  194 (634)
Q Consensus       145 ~V~~a~~k~~~---~-------~----------~~~~~d~~~~~~~~s~~~~~tLfVgnLp--~d~-~t-------e~~L  194 (634)
                      +|..|.-....   .       .          .+.....+...+....+..++|.+.|+=  .+. -+       .++|
T Consensus       214 rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl  293 (382)
T KOG1548|consen  214 RVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDL  293 (382)
T ss_pred             EEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHH
Confidence            99887532210   0       0          0011112111222334567899999972  111 12       3556


Q ss_pred             HHhhccCCCEEEEEEe--cCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          195 LSHFQKFGEVVDIYIP--LNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       195 ~~~FskfG~I~~v~v~--~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ++-.++||.|.+|.|.  ...|.+.|.|.+.++|..||+.|+| .|+||.|..+..
T Consensus       294 ~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~  349 (382)
T KOG1548|consen  294 TEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIW  349 (382)
T ss_pred             HHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEe
Confidence            6779999999999886  3448999999999999999999999 899999998765

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

Probab=98.62  E-value=2.3e-08  Score=104.70  Aligned_cols=69  Identities=25%  Similarity=0.479  Sum_probs=65.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      .|+||||.|.++ +.|+.||..|..||.|.+|.|..|      ++||||+|+-++.|..|++.||| +++||.|+|.
T Consensus       113 McRvYVGSIsfE-l~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg  188 (544)
T KOG0124|consen  113 MCRVYVGSISFE-LREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG  188 (544)
T ss_pred             hHheeeeeeEEE-echHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence            589999999997 999999999999999999999875      47999999999999999999999 8999999997

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=98.58  E-value=9.2e-08  Score=75.54  Aligned_cols=53  Identities=21%  Similarity=0.379  Sum_probs=44.7

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF  532 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~  532 (634)
                      +|.|.|+|..|.   +.+.++.||.+||+|..+.+.+..             ++++|+|.+|.+||+|+
T Consensus         1 ~~wI~V~Gf~~~---~~~~vl~~F~~fGeI~~~~~~~~~-------------~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    1 STWISVSGFPPD---LAEEVLEHFASFGEIVDIYVPEST-------------NWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             CcEEEEEeECch---HHHHHHHHHHhcCCEEEEEcCCCC-------------cEEEEEECCHHHHHhhC
Confidence            588999866433   256888899999999999998655             79999999999999995

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

Probab=98.56  E-value=1.3e-07  Score=94.26  Aligned_cols=76  Identities=30%  Similarity=0.467  Sum_probs=68.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHH----hhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALLS----HFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~----~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ++.||||.||+.. +..++|+.    +|++||.|.+|.+...   +|.|||.|.+.+.|..|+.+|+| .+-|++++|.|
T Consensus         8 pn~TlYInnLnek-I~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqy   86 (221)
T KOG4206|consen    8 PNGTLYINNLNEK-IKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQY   86 (221)
T ss_pred             CCceEeehhcccc-ccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheec
Confidence            3559999999995 99999998    9999999999988754   58999999999999999999999 79999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      |+.+.
T Consensus        87 A~s~s   91 (221)
T KOG4206|consen   87 AKSDS   91 (221)
T ss_pred             ccCcc
Confidence            98654

>PF13893 RRM_5: RNA recognition motif

Probab=98.54  E-value=2.7e-07  Score=72.80  Aligned_cols=54  Identities=20%  Similarity=0.452  Sum_probs=48.1

Q ss_pred             HHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCceeEEEEe
Q 048615          483 LKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDLQFTWL  548 (634)
Q Consensus       483 L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l~l~W~  548 (634)
                      |+++|..||+|..|.+.+..            .++++|+|.++.+|++|+.  +|..|.|++|++.|.
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            78999999999999998764            2799999999999999986  799999999999994

(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 ....

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

Probab=98.54  E-value=1.9e-07  Score=94.23  Aligned_cols=183  Identities=13%  Similarity=0.093  Sum_probs=129.5

Q ss_pred             hhhcccCC-----CCCccccccCCCCCCccccccCCCCCCcccccCCCccccccccccceeeecceeeeeccccccCCCc
Q 048615           40 GLAALHSS-----NDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATL  114 (634)
Q Consensus        40 ~~~~~~~~-----~~~~~~~~~~~~~~~~h~~~~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s  114 (634)
                      ...+-+++     .|+.+.++--+ -+||..|++.....   | +    .....-+..+|+.+-..+..+.++.... ..
T Consensus        70 ~v~tav~~~s~~a~~~~Pt~l~~~-P~vf~p~~~~~g~~---v-~----pep~lp~~~~f~~~p~L~ktk~v~~~p~-~~  139 (290)
T KOG0226|consen   70 RVKTAVGRKSAPAVWADPTLLAPA-PAVFRPFQSNAGAT---V-N----PEPPLPLPVVFSEYPSLVKTKLVRDRPQ-PI  139 (290)
T ss_pred             hhhhhccccccccccCCCccCCCC-cccccccccccccc---c-C----CCCCCcchhhhccchhhhhhhhhhcCCC-cc
Confidence            34444555     88888877544 46777776655321   1 0    1112334566666655555545555444 45


Q ss_pred             CceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHH
Q 048615          115 NSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREA  193 (634)
Q Consensus       115 ~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~  193 (634)
                      .+++|+.|.....- ++-..-+++.+.-++|+.........+.-...            .....+||+|.|.-+ ++++.
T Consensus       140 ~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedPsl~ew------------~~~DfRIfcgdlgNe-vnd~v  206 (290)
T KOG0226|consen  140 RPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSWEDPSLAEW------------DEDDFRIFCGDLGNE-VNDDV  206 (290)
T ss_pred             CcccccCcchhhhhhhhccccccccccCcceeeccccccCCcccccC------------ccccceeeccccccc-ccHHH
Confidence            89999999987666 78877788888887777765544332211110            112469999999997 99999


Q ss_pred             HHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          194 LLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       194 L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      |...|.+|-.....++++++      +|+||.|.+.+++..|++.|+| .+++|+|++.
T Consensus       207 l~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR  265 (290)
T KOG0226|consen  207 LARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR  265 (290)
T ss_pred             HHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence            99999999988888888875      6999999999999999999999 8999999875

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

Probab=98.53  E-value=1.6e-07  Score=94.01  Aligned_cols=77  Identities=18%  Similarity=0.168  Sum_probs=61.4

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      -|-+=|+|+| |+|+=+-. .+.||.||++||||...++.-++.      ..-|+ +.+||||+++.+|+||... ...|
T Consensus         8 ~DT~~TKifV-ggL~w~T~-~~~l~~yFeqfGeI~eavvitd~~------t~rsk-GyGfVTf~d~~aa~rAc~dp~piI   78 (247)
T KOG0149|consen    8 GDTTFTKIFV-GGLAWETH-KETLRRYFEQFGEIVEAVVITDKN------TGRSK-GYGFVTFRDAEAATRACKDPNPII   78 (247)
T ss_pred             CCceEEEEEE-cCcccccc-hHHHHHHHHHhCceEEEEEEeccC------Ccccc-ceeeEEeecHHHHHHHhcCCCCcc
Confidence            4888899999 99998776 899999999999998776654431      22345 7999999999999999987 5577


Q ss_pred             CCceeEE
Q 048615          539 QGHDLQF  545 (634)
Q Consensus       539 ~g~~l~l  545 (634)
                      .|++.+.
T Consensus        79 dGR~aNc   85 (247)
T KOG0149|consen   79 DGRKANC   85 (247)
T ss_pred             ccccccc
Confidence            8855443

>smart00361 RRM_1 RNA recognition motif

Probab=98.53  E-value=2.2e-07  Score=77.12  Aligned_cols=54  Identities=26%  Similarity=0.447  Sum_probs=47.3

Q ss_pred             HHHHHHhhc----cCCCEEEEE-EecC--------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          191 REALLSHFQ----KFGEVVDIY-IPLN--------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       191 e~~L~~~Fs----kfG~I~~v~-v~~d--------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      +++|+++|+    +||.|.+|. |..+        +|||||+|.+.++|.+|+..|+| .++||.|++
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            568889998    999999985 4332        46999999999999999999999 899999986

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

Probab=98.52  E-value=1.2e-07  Score=99.25  Aligned_cols=75  Identities=24%  Similarity=0.379  Sum_probs=69.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ++...|||..|.+ -+++++|.-+|+.||.|.+|.|++|+      .||||+|.+.++.++|+-.|++ .|+.|.|.|+|
T Consensus       237 PPeNVLFVCKLNP-VTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF  315 (479)
T KOG0415|consen  237 PPENVLFVCKLNP-VTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF  315 (479)
T ss_pred             CCcceEEEEecCC-cccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence            4567999999999 48999999999999999999999987      3999999999999999999999 69999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      ...
T Consensus       316 SQS  318 (479)
T KOG0415|consen  316 SQS  318 (479)
T ss_pred             hhh
Confidence            854

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

Probab=98.50  E-value=1.8e-07  Score=103.78  Aligned_cols=163  Identities=17%  Similarity=0.240  Sum_probs=109.8

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCc--cc---
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPS--TK---  159 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~--~~---  159 (634)
                      ...++-..||.+.....+.+..+   +-++||||-+|.+..-. .|+..|||..++++++.|..+........  ..   
T Consensus       305 q~~Ell~~fg~lk~f~lv~d~~~---g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~  381 (500)
T KOG0120|consen  305 QVKELLDSFGPLKAFRLVKDSAT---GNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQ  381 (500)
T ss_pred             HHHHHHHhcccchhheeeccccc---ccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCccc
Confidence            34445566766666665555444   45699999999999999 99999999999999999998875442111  01   


Q ss_pred             -cccccccccCCCCCCCCCEEEEeCC--CCCCCCH-------HHHHHhhccCCCEEEEEEecC-C--------CeEEEEe
Q 048615          160 -AQNDHMRNIRKPSQKALRTLFVNNV--PLKSNRR-------EALLSHFQKFGEVVDIYIPLN-S--------ERAFVQF  220 (634)
Q Consensus       160 -~~~d~~~~~~~~s~~~~~tLfVgnL--p~d~~te-------~~L~~~FskfG~I~~v~v~~d-k--------g~AFV~F  220 (634)
                       ...............+...|.+-|+  |.+..++       ++++.-+++||.|..|.|+++ .        |..||+|
T Consensus       382 ~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVef  461 (500)
T KOG0120|consen  382 SQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEF  461 (500)
T ss_pred             cccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEe
Confidence             0000000000111122233433342  2222222       345667889999999999876 2        5899999


Q ss_pred             CCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          221 SKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       221 ~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      .+.+++++|+..|.| .++||.+.+.|.-++.
T Consensus       462 as~ed~qrA~~~L~GrKF~nRtVvtsYydeDk  493 (500)
T KOG0120|consen  462 ADTEDSQRAMEELTGRKFANRTVVASYYDEDK  493 (500)
T ss_pred             cChHHHHHHHHHccCceeCCcEEEEEecCHHH
Confidence            999999999999999 8999999999985543

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

Probab=98.49  E-value=9.9e-08  Score=95.78  Aligned_cols=79  Identities=11%  Similarity=0.130  Sum_probs=70.9

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.|.|.| ++-+..++.+..+|.+||.+..+...++|.++.++|||||.|.+.++| +||..|||.-++.--|+|.|+.+
T Consensus       190 ~tvRvtN-Lsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP  268 (270)
T KOG0122|consen  190 ATVRVTN-LSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP  268 (270)
T ss_pred             ceeEEec-CccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence            4556655 677788888999999999999888899999999999999999999999 99999999999999999999986


Q ss_pred             c
Q 048615          152 K  152 (634)
Q Consensus       152 k  152 (634)
                      +
T Consensus       269 ~  269 (270)
T KOG0122|consen  269 S  269 (270)
T ss_pred             C
Confidence            5

>smart00361 RRM_1 RNA recognition motif

Probab=98.48  E-value=1.9e-07  Score=77.52  Aligned_cols=55  Identities=20%  Similarity=0.296  Sum_probs=41.6

Q ss_pred             ceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEc
Q 048615           93 VWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEG  147 (634)
Q Consensus        93 vfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~  147 (634)
                      .||.|+.|..+...+....+.++|||||.|.+.++| +|+..|||..+.||.|++.
T Consensus        15 ~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361       15 YFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             hcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            566666664222222222256799999999999999 9999999999999999873

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

Probab=98.45  E-value=6.4e-08  Score=95.59  Aligned_cols=57  Identities=19%  Similarity=0.176  Sum_probs=49.0

Q ss_pred             ecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           97 IGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        97 Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +|+|..+.++.+-.+.++||||||+|...|+| .||..||+.+|.||.|+|+++.+..
T Consensus        34 FGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~k   91 (298)
T KOG0111|consen   34 FGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEK   91 (298)
T ss_pred             ccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcc
Confidence            35555555666677788899999999999999 9999999999999999999998755

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

Probab=98.45  E-value=6.5e-06  Score=86.45  Aligned_cols=78  Identities=19%  Similarity=0.274  Sum_probs=67.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--------EEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--------IYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--------v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      .-++.|||.|||.+ +|.+++.++|++||-|..        |.+.++.     |=|++.|...++...|++.|++ .|.|
T Consensus       132 ~~Nt~VYVsgLP~D-iT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg  210 (382)
T KOG1548|consen  132 KVNTSVYVSGLPLD-ITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRG  210 (382)
T ss_pred             ccCceEEecCCCCc-ccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence            34788999999998 999999999999998873        5555543     5699999999999999999999 8999


Q ss_pred             eEEEEEeecCCCC
Q 048615          240 RFIKLWWANRDSI  252 (634)
Q Consensus       240 R~IkV~wak~~~~  252 (634)
                      +.|+|.-|+.+..
T Consensus       211 ~~~rVerAkfq~K  223 (382)
T KOG1548|consen  211 KKLRVERAKFQMK  223 (382)
T ss_pred             cEEEEehhhhhhc
Confidence            9999999876554

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

Probab=98.42  E-value=1.6e-07  Score=97.69  Aligned_cols=77  Identities=16%  Similarity=0.240  Sum_probs=56.9

Q ss_pred             CCcccccCCCcc-ccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           73 NDLPVRNAGTAA-VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        73 ~~~~v~n~~~~~-~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      +-++|.|  ++| .-+-+++.||+++|.|..+-++-..++  |||||||.|++.+|| +|-.+|+|+++.||+|.|+.+.
T Consensus        97 kRLhVSN--IPFrFRdpDL~aMF~kfG~VldVEIIfNERG--SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT  172 (376)
T KOG0125|consen   97 KRLHVSN--IPFRFRDPDLRAMFEKFGKVLDVEIIFNERG--SKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT  172 (376)
T ss_pred             ceeEeec--CCccccCccHHHHHHhhCceeeEEEEeccCC--CCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence            4456665  444 333446677666666555555533332  599999999999999 9999999999999999999887


Q ss_pred             ccC
Q 048615          151 QKN  153 (634)
Q Consensus       151 ~k~  153 (634)
                      .+-
T Consensus       173 arV  175 (376)
T KOG0125|consen  173 ARV  175 (376)
T ss_pred             hhh
Confidence            653

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.37  E-value=3.4e-06  Score=85.67  Aligned_cols=76  Identities=21%  Similarity=0.259  Sum_probs=65.2

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQG  540 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g  540 (634)
                      +...+|+| ++|+...+ +++|+++|..||+|++|+|..+..  .        .+.+||+|+++.+||.|+. +|..|.|
T Consensus         3 ~~g~TV~V-~NLS~~tT-E~dLrefFS~~G~I~~V~I~~D~e--t--------~gfAfVtF~d~~aaetAllLnGa~l~d   70 (243)
T PLN03121          3 PGGYTAEV-TNLSPKAT-EKDVYDFFSHCGAIEHVEIIRSGE--Y--------ACTAYVTFKDAYALETAVLLSGATIVD   70 (243)
T ss_pred             CCceEEEE-ecCCCCCC-HHHHHHHHHhcCCeEEEEEecCCC--c--------ceEEEEEECCHHHHHHHHhcCCCeeCC
Confidence            45678999 89999998 999999999999999999986631  1        2689999999999999984 6999999


Q ss_pred             ceeEEE-EeC
Q 048615          541 HDLQFT-WLM  549 (634)
Q Consensus       541 ~~l~l~-W~~  549 (634)
                      +.|.|. |..
T Consensus        71 ~~I~It~~~~   80 (243)
T PLN03121         71 QRVCITRWGQ   80 (243)
T ss_pred             ceEEEEeCcc
Confidence            999987 543

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

Probab=98.36  E-value=1.1e-05  Score=89.67  Aligned_cols=136  Identities=12%  Similarity=0.175  Sum_probs=102.0

Q ss_pred             CceEEEEcCCHHHHHHHhccCCceeCCEEEEEccCcccCCCCcccc----ccccccccCCC-CCCCCCEEEEeCCCCCCC
Q 048615          115 NSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA----QNDHMRNIRKP-SQKALRTLFVNNVPLKSN  189 (634)
Q Consensus       115 ~GfgFVeF~~~e~A~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~----~~d~~~~~~~~-s~~~~~tLfVgnLp~d~~  189 (634)
                      ..|+|++|.+.++|.+...+++..+.|+++++.........+..-.    .......+..+ ..-...++||++||. ++
T Consensus       223 ~nfa~ie~~s~~~at~~~~~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~-~l  301 (500)
T KOG0120|consen  223 KNFAFIEFRSISEATEAMALDGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPL-YL  301 (500)
T ss_pred             ccceeEEecCCCchhhhhcccchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcC-cc
Confidence            6899999999999944447899999999998875554432211100    00001111111 112356899999999 69


Q ss_pred             CHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          190 RREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       190 te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      ++.+++++...||.+....++.+      ++|||.+|.+..-...|+..+|| .+++.+|.|..|-.+.
T Consensus       302 ~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~  370 (500)
T KOG0120|consen  302 TEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGA  370 (500)
T ss_pred             CHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccc
Confidence            99999999999999998877764      47999999999999999999999 6899999999886443

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

Probab=98.32  E-value=2.3e-07  Score=84.96  Aligned_cols=77  Identities=13%  Similarity=0.137  Sum_probs=68.6

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .+.+|+| ++...+++.+..+|.+.|+|+.+..--++.+.+.=|||||+|...++| .||.-+||+.|+.|+|+|+|--
T Consensus        37 ~tvyVgN-lSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~  114 (153)
T KOG0121|consen   37 CTVYVGN-LSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA  114 (153)
T ss_pred             ceEEEee-eeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence            4556777 778899999999999999999887777777777789999999999999 9999999999999999999764

>PLN03213 repressor of silencing 3; Provisional

Probab=98.31  E-value=3.7e-07  Score=98.91  Aligned_cols=72  Identities=15%  Similarity=0.288  Sum_probs=60.1

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCH--HHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETK--EDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~--e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +|+| +....+++.+..+|..+|.|..+.+++++  +  ||||||+|...  .++ +||..|||..|.||.|+|+.|.+.
T Consensus        14 YVGN-LSydVTEDDLravFSeFGsVkdVEIpRET--G--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~   88 (759)
T PLN03213         14 HVGG-LGESVGRDDLLKIFSPMGTVDAVEFVRTK--G--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEH   88 (759)
T ss_pred             EEeC-CCCCCCHHHHHHHHHhcCCeeEEEEeccc--C--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHH
Confidence            4444 45567888999999999999999888443  2  89999999987  456 999999999999999999988754

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

Probab=98.28  E-value=7e-07  Score=102.76  Aligned_cols=146  Identities=14%  Similarity=0.130  Sum_probs=116.1

Q ss_pred             ccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccc
Q 048615           85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQND  163 (634)
Q Consensus        85 ~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d  163 (634)
                      .++..++-.|+..|-|..+ +|+...-++-+.||||.|.+...+ .|..+|.|..|.-..+++.+...+.          
T Consensus       384 l~eseiR~af~e~gkve~V-DiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~ks----------  452 (975)
T KOG0112|consen  384 LTESEIRPAFDESGKVEEV-DIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQPKS----------  452 (975)
T ss_pred             hhhhhhhhhhhhhcccccc-ccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccccccc----------
Confidence            4566677778887765554 566654445578999999999999 9999999987766666655443211          


Q ss_pred             cccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCC--e
Q 048615          164 HMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGN--R  240 (634)
Q Consensus       164 ~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~g--R  240 (634)
                                ...+.+||++|+. |+....|...|..||.|..|.+....-||||.|.+...|+.|+..|-| -|++  +
T Consensus       453 ----------t~ttr~~sgglg~-w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~  521 (975)
T KOG0112|consen  453 ----------TPTTRLQSGGLGP-WSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPR  521 (975)
T ss_pred             ----------ccceeeccCCCCC-CChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCc
Confidence                      1257999999999 899999999999999999988766666999999999999999999999 5664  7


Q ss_pred             EEEEEeecCCCC
Q 048615          241 FIKLWWANRDSI  252 (634)
Q Consensus       241 ~IkV~wak~~~~  252 (634)
                      .|+|.|+.....
T Consensus       522 r~rvdla~~~~~  533 (975)
T KOG0112|consen  522 RLRVDLASPPGA  533 (975)
T ss_pred             ccccccccCCCC
Confidence            899999975544

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

Probab=98.27  E-value=1.2e-06  Score=94.00  Aligned_cols=73  Identities=23%  Similarity=0.332  Sum_probs=65.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +..|+|||.|||++ +||..|++-|..||.|..+.|+.+ +..+.|.|.++++|+.|+..|+| .++||.|+|.|.
T Consensus       534 rKa~qIiirNlP~d-fTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~  608 (608)
T KOG4212|consen  534 RKACQIIIRNLPFD-FTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF  608 (608)
T ss_pred             ccccEEEEecCCcc-ccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence            44689999999996 999999999999999999988442 34679999999999999999999 899999999874

>smart00360 RRM RNA recognition motif

Probab=98.25  E-value=1.2e-06  Score=69.40  Aligned_cols=64  Identities=20%  Similarity=0.347  Sum_probs=53.3

Q ss_pred             cccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEc
Q 048615           84 AVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEG  147 (634)
Q Consensus        84 ~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~  147 (634)
                      ..+.+.+..+|..+|.+..+.....+.++.++|||||+|.+.++| .|+..|+|..+.|+.|+|.
T Consensus         7 ~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        7 DVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             ccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            346667778888888777776666665667799999999999999 9999999999999999874

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

Probab=98.24  E-value=2e-05  Score=86.86  Aligned_cols=74  Identities=26%  Similarity=0.342  Sum_probs=67.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..+.|||.+|.. .+...+|+.+|++||.|+-..|+.+-      .|+||++.+.++|.+||..|+. .|.||.|.|.-+
T Consensus       404 ~gRNlWVSGLSs-tTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka  482 (940)
T KOG4661|consen  404 LGRNLWVSGLSS-TTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA  482 (940)
T ss_pred             cccceeeecccc-chhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence            357999999999 58899999999999999999988753      4999999999999999999998 899999999988


Q ss_pred             cC
Q 048615          248 NR  249 (634)
Q Consensus       248 k~  249 (634)
                      +.
T Consensus       483 KN  484 (940)
T KOG4661|consen  483 KN  484 (940)
T ss_pred             cc
Confidence            53

>smart00362 RRM_2 RNA recognition motif

Probab=98.22  E-value=5.5e-06  Score=65.86  Aligned_cols=69  Identities=26%  Similarity=0.395  Sum_probs=57.3

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCcee
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDL  543 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l  543 (634)
                      +|+| ++||...+ .++|+++|.+||.|..|.+....        . .....++|+|.+..+|++|+.  +|..|.|+.|
T Consensus         1 ~v~i-~~l~~~~~-~~~l~~~~~~~g~v~~~~~~~~~--------~-~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i   69 (72)
T smart00362        1 TLFV-GNLPPDVT-EEDLKELFSKFGPIESVKIPKDT--------G-KSKGFAFVEFESEEDAEKAIEALNGTKLGGRPL   69 (72)
T ss_pred             CEEE-cCCCCcCC-HHHHHHHHHhcCCEEEEEEecCC--------C-CCCceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence            4788 78899987 89999999999999999887553        1 112689999999999999985  4788888888


Q ss_pred             EE
Q 048615          544 QF  545 (634)
Q Consensus       544 ~l  545 (634)
                      ++
T Consensus        70 ~v   71 (72)
T smart00362       70 RV   71 (72)
T ss_pred             ee
Confidence            75

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=98.22  E-value=2.7e-06  Score=95.87  Aligned_cols=78  Identities=29%  Similarity=0.431  Sum_probs=70.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC---------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS---------ERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk---------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      +..+.|||+||++ .++++.|...|..||.|..|+|+..+         .|+||-|-++.+|++|++.|+| ++.++.++
T Consensus       172 P~TTNlyv~Nlnp-sv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K  250 (877)
T KOG0151|consen  172 PQTTNLYVGNLNP-SVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK  250 (877)
T ss_pred             CcccceeeecCCc-cccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence            4478999999999 59999999999999999999998743         4999999999999999999999 79999999


Q ss_pred             EEeecCCCC
Q 048615          244 LWWANRDSI  252 (634)
Q Consensus       244 V~wak~~~~  252 (634)
                      +-|++.-..
T Consensus       251 ~gWgk~V~i  259 (877)
T KOG0151|consen  251 LGWGKAVPI  259 (877)
T ss_pred             ecccccccc
Confidence            999975443

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.20  E-value=1.2e-06  Score=71.64  Aligned_cols=63  Identities=19%  Similarity=0.336  Sum_probs=50.4

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEE
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRII  145 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~  145 (634)
                      +...+.+.+..+|.++|.|..+...+.+. +..+|||||+|.+.++| +|+..++|..++||.|+
T Consensus         7 p~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    7 PPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             TTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            34456677777788777777776666655 56789999999999999 99999999999999985

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 ....

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

Probab=98.20  E-value=7.4e-07  Score=86.10  Aligned_cols=70  Identities=14%  Similarity=0.205  Sum_probs=64.1

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      +...-+++++-.||..+|.+.++-.++++.+++++||||+-|++...- -|+..|||..|.||.|+|....
T Consensus        43 l~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~  113 (219)
T KOG0126|consen   43 LPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS  113 (219)
T ss_pred             CcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence            445568889999999999999999999999999999999999999999 9999999999999999998554

>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=98.19  E-value=8.3e-06  Score=65.19  Aligned_cols=72  Identities=25%  Similarity=0.379  Sum_probs=60.1

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc--CCccCCcee
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS--GKSWQGHDL  543 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~--g~~~~g~~l  543 (634)
                      +|+| ++||...+ +++|+++|..||+|..+.+......        .....++|+|.+..+|..|+..  |..|.|..+
T Consensus         1 ~i~i-~~l~~~~~-~~~i~~~~~~~g~i~~~~~~~~~~~--------~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~   70 (74)
T cd00590           1 TLFV-GNLPPDVT-EEDLRELFSKFGKVESVRIVRDKDT--------KSKGFAFVEFEDEEDAEKALEALNGKELGGRPL   70 (74)
T ss_pred             CEEE-eCCCCccC-HHHHHHHHHhcCCEEEEEEeeCCCC--------CcceEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            4678 78999987 8999999999999999998865410        2237899999999999999864  777899999


Q ss_pred             EEEE
Q 048615          544 QFTW  547 (634)
Q Consensus       544 ~l~W  547 (634)
                      .+.|
T Consensus        71 ~v~~   74 (74)
T cd00590          71 RVEF   74 (74)
T ss_pred             EEeC
Confidence            9887

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).

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.19  E-value=3.1e-06  Score=88.99  Aligned_cols=151  Identities=19%  Similarity=0.218  Sum_probs=105.9

Q ss_pred             ccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCC-ceeCCEEEEEccCcccCCCCcccccccccccc
Q 048615           91 MSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQG-SYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNI  168 (634)
Q Consensus        91 ~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG-~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~  168 (634)
                      -.++...|.+.........-...++||++|.|..++.+ .++ .|.+ ..+.++.+............. .   ..   .
T Consensus       106 ~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l-~~s~~~~~~~~~~~~dl~~~~~~~~~-n---~~---~  177 (285)
T KOG4210|consen  106 DNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAAL-EESGSKVLDGNKGEKDLNTRRGLRPK-N---KL---S  177 (285)
T ss_pred             cccchhhcCcccchhhhhccccccccceeeccccHHHHHHHH-HhhhccccccccccCccccccccccc-c---hh---c
Confidence            34455555444443444444556799999999999999 666 5566 466677666554443321000 0   00   0


Q ss_pred             CCCCCCCCCEEE-EeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCe
Q 048615          169 RKPSQKALRTLF-VNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNR  240 (634)
Q Consensus       169 ~~~s~~~~~tLf-VgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR  240 (634)
                      +... ....++| |+++++. ++.++|..+|..+|.|..++++.++      +||||.|.....+..++.. +. .+.++
T Consensus       178 ~~~~-~~s~~~~~~~~~~f~-~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~  254 (285)
T KOG4210|consen  178 RLSS-GPSDTIFFVGELDFS-LTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGR  254 (285)
T ss_pred             cccc-Cccccceeecccccc-cchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCc
Confidence            0111 1234555 9999995 9999999999999999999998765      5999999999999999988 66 79999


Q ss_pred             EEEEEeecCCCC
Q 048615          241 FIKLWWANRDSI  252 (634)
Q Consensus       241 ~IkV~wak~~~~  252 (634)
                      ++++.+..+...
T Consensus       255 ~~~~~~~~~~~~  266 (285)
T KOG4210|consen  255 PLRLEEDEPRPK  266 (285)
T ss_pred             ccccccCCCCcc
Confidence            999999875543

>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=3e-06  Score=96.36  Aligned_cols=96  Identities=17%  Similarity=0.240  Sum_probs=78.4

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc--CCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS--GKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~--g~~~~g~  541 (634)
                      .|||+| |.|+..++ +.+|++.|..||+|+||.+....             .||||+-..|.+||+|+.+  .-.+.+.
T Consensus       421 SrTLwv-G~i~k~v~-e~dL~~~feefGeiqSi~li~~R-------------~cAfI~M~~RqdA~kalqkl~n~kv~~k  485 (894)
T KOG0132|consen  421 SRTLWV-GGIPKNVT-EQDLANLFEEFGEIQSIILIPPR-------------GCAFIKMVRRQDAEKALQKLSNVKVADK  485 (894)
T ss_pred             eeeeee-ccccchhh-HHHHHHHHHhcccceeEeeccCC-------------ceeEEEEeehhHHHHHHHHHhcccccce
Confidence            689999 99999998 99999999999999999999888             8999999999999999865  5567789


Q ss_pred             eeEEEEeCCCCCCCCCCCCCCcccccCCCCCC----cccchhhhhhh
Q 048615          542 DLQFTWLMPSSSSNDLGNKEKTSTFLKGSSDT----DVQKEEKLSSV  584 (634)
Q Consensus       542 ~l~l~W~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~  584 (634)
                      .+++.|+...-..+          -=||-.|.    ..+|.+||..-
T Consensus       486 ~Iki~Wa~g~G~ks----------e~k~~wD~~lGVt~IP~~kLt~d  522 (894)
T KOG0132|consen  486 TIKIAWAVGKGPKS----------EYKDYWDVELGVTYIPWEKLTDD  522 (894)
T ss_pred             eeEEeeeccCCcch----------hhhhhhhcccCeeEeehHhcCHH
Confidence            99999987665432          11244444    45788888543

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

Probab=98.17  E-value=5.6e-07  Score=90.92  Aligned_cols=91  Identities=14%  Similarity=0.228  Sum_probs=70.9

Q ss_pred             CCCccccccCCCCCCccccccCCCCCCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHH
Q 048615           48 NDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKED  127 (634)
Q Consensus        48 ~~~~~~~~~~~~~~~~h~~~~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~  127 (634)
                      .|+.+++...|+ |.|-+|-+|+.- +          -+.+-+.-.|.+|-.....+.++++.+++++|||||.|.+.++
T Consensus       177 swedPsl~ew~~-~DfRIfcgdlgN-e----------vnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad  244 (290)
T KOG0226|consen  177 SWEDPSLAEWDE-DDFRIFCGDLGN-E----------VNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPAD  244 (290)
T ss_pred             ccCCcccccCcc-ccceeecccccc-c----------ccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHH
Confidence            788888886666 447888888841 1          1222344667777776666667888889999999999999999


Q ss_pred             H-HHHhccCCceeCCEEEEEccCc
Q 048615          128 R-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus       128 A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      + .||.+|||..++.|+|+...+.
T Consensus       245 ~~rAmrem~gkyVgsrpiklRkS~  268 (290)
T KOG0226|consen  245 YVRAMREMNGKYVGSRPIKLRKSE  268 (290)
T ss_pred             HHHHHHhhcccccccchhHhhhhh
Confidence            9 9999999999999999987544

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

Probab=98.13  E-value=3.6e-05  Score=81.47  Aligned_cols=158  Identities=13%  Similarity=0.120  Sum_probs=114.0

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCE--EEEEccCcccCCC-------
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGK--RIIEGDAIQKNMD-------  155 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR--~I~V~~a~~k~~~-------  155 (634)
                      +.+-+..+.-..|.|--+.++++  +   ---|.|+|++.+.| +|-..|||..|...  +++|++|++....       
T Consensus       135 tvDVly~Icnp~GkVlRIvIfkk--n---gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV~knd~D  209 (494)
T KOG1456|consen  135 TVDVLYTICNPQGKVLRIVIFKK--N---GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNVQKNDKD  209 (494)
T ss_pred             chhhhhhhcCCCCceEEEEEEec--c---ceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeeeeecCCc
Confidence            44445666666677655555543  3   22699999999999 99999999988644  4788888764310       


Q ss_pred             --------------C------ccc-----------cc----------------------cccccccC----CCCCCCCCE
Q 048615          156 --------------P------STK-----------AQ----------------------NDHMRNIR----KPSQKALRT  178 (634)
Q Consensus       156 --------------~------~~~-----------~~----------------------~d~~~~~~----~~s~~~~~t  178 (634)
                                    +      +.+           ..                      .+..+..+    .....+.+.
T Consensus       210 twDyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~g~V  289 (494)
T KOG1456|consen  210 TWDYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRDGRGYASPGGGAPGCV  289 (494)
T ss_pred             cccccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCccccccCCCCCCCCCCCCCcE
Confidence                          0      000           00                      00000000    011234688


Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +.|.+|....++-+.|..+|-.||.|.+|.+++.+ +-|.|++.+..+.++|+..||+ .+-|.+|.|.+.+
T Consensus       290 mMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~Sk  361 (494)
T KOG1456|consen  290 MMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSK  361 (494)
T ss_pred             EEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecc
Confidence            99999999889999999999999999999988865 7999999999999999999999 5677788888876

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

Probab=98.09  E-value=2.3e-06  Score=94.31  Aligned_cols=71  Identities=15%  Similarity=0.231  Sum_probs=66.3

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ...+++.+.++|..+|.|...+.+-++.++.++||||++|.+.+++ .|+..|||.++.||+|+|.|+....
T Consensus        28 ~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~   99 (435)
T KOG0108|consen   28 YEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRK   99 (435)
T ss_pred             CcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccc
Confidence            4578999999999999999999999999999999999999999999 9999999999999999999987543

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

Probab=98.03  E-value=1.3e-05  Score=79.19  Aligned_cols=75  Identities=20%  Similarity=0.350  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccC-CCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKF-GEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~Fskf-G~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...-+||..+|.. +.+..+..+|.+| |.|..+++.+++      |||||+|++.+.|.-|-+.||+ .|+++.|.|.+
T Consensus        48 ~~g~~~~~~~p~g-~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v  126 (214)
T KOG4208|consen   48 IEGVVYVDHIPHG-FFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV  126 (214)
T ss_pred             Cccceeecccccc-hhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence            3468999999994 9999999999998 777788887764      6999999999999999999999 78999999998


Q ss_pred             ecCC
Q 048615          247 ANRD  250 (634)
Q Consensus       247 ak~~  250 (634)
                      -.+.
T Consensus       127 mppe  130 (214)
T KOG4208|consen  127 MPPE  130 (214)
T ss_pred             eCch
Confidence            7644

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

Probab=98.03  E-value=3.6e-06  Score=86.85  Aligned_cols=72  Identities=18%  Similarity=0.258  Sum_probs=65.5

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +..++++.+...|.++|+|+.+..++++.+++++|||||+|+++-+. .|....+|..|+||.|.|..-....
T Consensus       110 nydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRT  182 (335)
T KOG0113|consen  110 NYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRT  182 (335)
T ss_pred             cccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEeccccc
Confidence            45688889999999999999999999999999999999999999999 9999999999999999998766544

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

Probab=97.99  E-value=3.2e-05  Score=77.06  Aligned_cols=76  Identities=20%  Similarity=0.330  Sum_probs=64.3

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec-CC------CeEEEEeCCHHHHHHHHHcCCC-ccC---CeEEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL-NS------ERAFVQFSKREEAEAALKSPDA-VMG---NRFIKL  244 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~-dk------g~AFV~F~s~e~A~~Ai~~lng-~l~---gR~IkV  244 (634)
                      -+||||.+||.| +...+|..+|..|-.-..+.+.. ++      -+|||+|.++.+|..|+..||| .|+   +..|++
T Consensus        34 VRTLFVSGLP~D-vKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhi  112 (284)
T KOG1457|consen   34 VRTLFVSGLPND-VKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHI  112 (284)
T ss_pred             cceeeeccCCcc-cCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEe
Confidence            589999999998 99999999999987666665543 22      2899999999999999999999 455   788999


Q ss_pred             EeecCCCC
Q 048615          245 WWANRDSI  252 (634)
Q Consensus       245 ~wak~~~~  252 (634)
                      .+|+...+
T Consensus       113 ElAKSNtK  120 (284)
T KOG1457|consen  113 ELAKSNTK  120 (284)
T ss_pred             eehhcCcc
Confidence            99986554

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

Probab=97.95  E-value=7.9e-06  Score=86.61  Aligned_cols=75  Identities=24%  Similarity=0.355  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      .++|||++|+++ ++++.|+.+|.+||+|.+|.|++++      +|+||+|++.+....++......|+||.|.+.-+.+
T Consensus         6 ~~KlfiGgisw~-ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~   84 (311)
T KOG4205|consen    6 SGKLFIGGLSWE-TTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS   84 (311)
T ss_pred             CcceeecCcCcc-ccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence            589999999997 9999999999999999999999875      699999999999999988887889999999887764


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus        85 r~   86 (311)
T KOG4205|consen   85 RE   86 (311)
T ss_pred             cc
Confidence            43

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

Probab=97.95  E-value=2.3e-05  Score=86.08  Aligned_cols=75  Identities=20%  Similarity=0.285  Sum_probs=64.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----C--CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----S--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----k--g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      ..+|||.|||++ ++..+|+++|.+||.|....|..-    +  .||||+|.+.+++..||++---.|++|.+.|.--+.
T Consensus       288 ~~~i~V~nlP~d-a~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  288 GLGIFVKNLPPD-ATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ccceEeecCCCC-CCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence            356999999997 999999999999999999887652    2  599999999999999999885589999999987655


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus       367 ~~  368 (419)
T KOG0116|consen  367 GF  368 (419)
T ss_pred             cc
Confidence            33

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

Probab=97.89  E-value=1.1e-05  Score=71.64  Aligned_cols=72  Identities=14%  Similarity=0.126  Sum_probs=63.1

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      .++| ++..-+-+....+||++|.|+-+++..++.+   +|.|||.|++..+| +|+..|+|..+.+|.+.|-+..+
T Consensus        22 yirN-Lp~~ITseemydlFGkyg~IrQIRiG~~k~T---rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~   94 (124)
T KOG0114|consen   22 YIRN-LPFKITSEEMYDLFGKYGTIRQIRIGNTKET---RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP   94 (124)
T ss_pred             EEec-CCccccHHHHHHHhhcccceEEEEecCccCc---CceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence            3555 6666778888999999999999988877766   99999999999999 99999999999999999987654

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

Probab=97.86  E-value=3.4e-05  Score=79.09  Aligned_cols=75  Identities=25%  Similarity=0.355  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|+|.|||+. +.+.+|+++|..||.+..+.|.+++     +.|-|.|...++|..|++.+++ .++|++|++.....
T Consensus        83 ~~~v~v~NL~~~-V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   83 STKVNVSNLPYG-VIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             cceeeeecCCcC-cchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            378999999995 9999999999999999999988876     6999999999999999999999 69999999998754


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus       162 ~~  163 (243)
T KOG0533|consen  162 PS  163 (243)
T ss_pred             cc
Confidence            43

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

Probab=97.86  E-value=4.5e-05  Score=73.63  Aligned_cols=76  Identities=28%  Similarity=0.257  Sum_probs=65.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      +..|.|+| |.|++..+ +.+|-.-|..||.|.+|-+.-..+            ..|||.|.++.+||.|..  .|+.|.
T Consensus         8 ~~~~kVYV-GnL~~~a~-k~eLE~~F~~yG~lrsvWvArnPP------------GfAFVEFed~RDA~DAvr~LDG~~~c   73 (195)
T KOG0107|consen    8 NGNTKVYV-GNLGSRAT-KRELERAFSKYGPLRSVWVARNPP------------GFAFVEFEDPRDAEDAVRYLDGKDIC   73 (195)
T ss_pred             CCCceEEe-ccCCCCcc-hHHHHHHHHhcCcceeEEEeecCC------------CceEEeccCcccHHHHHhhcCCcccc
Confidence            56899999 99999998 899999999999999999887664            899999999999999974  599999


Q ss_pred             C--ceeEEEEeCCC
Q 048615          540 G--HDLQFTWLMPS  551 (634)
Q Consensus       540 g--~~l~l~W~~~~  551 (634)
                      |  -+|+|+=+.+.
T Consensus        74 G~r~rVE~S~G~~r   87 (195)
T KOG0107|consen   74 GSRIRVELSTGRPR   87 (195)
T ss_pred             CceEEEEeecCCcc
Confidence            9  45555555444

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

Probab=97.84  E-value=1.8e-05  Score=79.48  Aligned_cols=71  Identities=17%  Similarity=0.371  Sum_probs=63.8

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ..+||++||+. ..+.+|..+|..||.|.+|.|.  .+|+||+|.+..+|.-|+..+++ +|+|-.+.|.|++..
T Consensus         2 ~rv~vg~~~~~-~~~~d~E~~f~~yg~~~d~~mk--~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~   73 (216)
T KOG0106|consen    2 PRVYIGRLPYR-ARERDVERFFKGYGKIPDADMK--NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK   73 (216)
T ss_pred             CceeecccCCc-cchhHHHHHHhhccccccceee--cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence            47999999995 9999999999999999998764  47889999999999999999999 788777999999743

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

Probab=97.81  E-value=1e-05  Score=89.45  Aligned_cols=68  Identities=34%  Similarity=0.438  Sum_probs=63.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      +.++|+|-|||. .+++++|+.+|+.||+|..|+.-+.+ +..||+|.+..+|+.|++++++ .|.|+.|+
T Consensus        74 ~~~~L~v~nl~~-~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   74 NQGTLVVFNLPR-SVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ccceEEEEecCC-cCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            357999999999 59999999999999999999887754 7999999999999999999999 89999998

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=97.80  E-value=0.00018  Score=81.64  Aligned_cols=92  Identities=22%  Similarity=0.246  Sum_probs=73.6

Q ss_pred             ccccc-CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-
Q 048615          456 NRYKL-DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-  533 (634)
Q Consensus       456 ~~~~l-Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-  533 (634)
                      +.+.. |+-+|.|+| |+|++.+. +..|..-|..||-|.+|++-=-.-++.    .-..-.|+||.|-+|++||+|+. 
T Consensus       165 gsfDdgDP~TTNlyv-~Nlnpsv~-E~~ll~tfGrfgPlasvKimwpRtEeE----k~r~r~cgfvafmnR~D~era~k~  238 (877)
T KOG0151|consen  165 GSFDDGDPQTTNLYV-GNLNPSVD-ENFLLRTFGRFGPLASVKIMWPRTEEE----KRRERNCGFVAFMNRADAERALKE  238 (877)
T ss_pred             CcCCCCCCcccceee-ecCCcccc-HHHHHHHhcccCcccceeeecccchhh----hccccccceeeehhhhhHHHHHHH
Confidence            45655 999999999 89999996 999999999999999999742221000    01122799999999999999995 


Q ss_pred             -cCCccCCceeEEEEeCCCCC
Q 048615          534 -SGKSWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       534 -~g~~~~g~~l~l~W~~~~~~  553 (634)
                       +|..+-+..++|.|+++..-
T Consensus       239 lqg~iv~~~e~K~gWgk~V~i  259 (877)
T KOG0151|consen  239 LQGIIVMEYEMKLGWGKAVPI  259 (877)
T ss_pred             hcceeeeeeeeeecccccccc
Confidence             59999999999999976643

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=97.79  E-value=9e-06  Score=88.33  Aligned_cols=77  Identities=38%  Similarity=0.571  Sum_probs=68.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~~  250 (634)
                      ..++.|-+..+|+...+..+|..||.+||.|.+|.|......|.|+|.++.+|..|......+|+||+|||.|.++.
T Consensus       370 ~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnps  446 (526)
T KOG2135|consen  370 VDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNPS  446 (526)
T ss_pred             cccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeeccccccchhccccceecCceeEEEEecCC
Confidence            34677888888887778999999999999999999988878999999999999999877766999999999999843

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

Probab=97.78  E-value=3.8e-06  Score=89.83  Aligned_cols=140  Identities=20%  Similarity=0.280  Sum_probs=109.3

Q ss_pred             CCccccccccccceeeecc-eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCc-eeCCEEEEEccCcccCCCCc
Q 048615           81 GTAAVSQNTSMSVWGRIGS-SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGS-YRRGKRIIEGDAIQKNMDPS  157 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~-V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~-~l~GR~I~V~~a~~k~~~~~  157 (634)
                      +.+..+-+++.+|||.-.. ...-+.++       .||+||.+.+...| +|+..++|+ .+.|+++.|....++...  
T Consensus         9 L~p~~~psdl~svfg~ak~~~~g~fl~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqr--   79 (584)
T KOG2193|consen    9 LSPQVTPSDLESVFGDAKIPGSGQFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQR--   79 (584)
T ss_pred             cCCCCChHHHHHHhccccCCCCcceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHH--
Confidence            3344555667888875421 11111222       79999999999999 999999995 589999999987765421  


Q ss_pred             cccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEe-cCCCe--EEEEeCCHHHHHHHHHcCC
Q 048615          158 TKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP-LNSER--AFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       158 ~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~-~dkg~--AFV~F~s~e~A~~Ai~~ln  234 (634)
                                        .+++-|.|||+. ..++.|..+..+||.+.+|... .+...  .-|+|...+.+..||..++
T Consensus        80 ------------------srk~Qirnippq-l~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~  140 (584)
T KOG2193|consen   80 ------------------SRKIQIRNIPPQ-LQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLN  140 (584)
T ss_pred             ------------------hhhhhHhcCCHH-HHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhc
Confidence                              246889999995 9999999999999999998653 45553  4489999999999999999


Q ss_pred             C-ccCCeEEEEEeec
Q 048615          235 A-VMGNRFIKLWWAN  248 (634)
Q Consensus       235 g-~l~gR~IkV~wak  248 (634)
                      | .|.+..++|.|.-
T Consensus       141 g~Q~en~~~k~~YiP  155 (584)
T KOG2193|consen  141 GPQLENQHLKVGYIP  155 (584)
T ss_pred             chHhhhhhhhcccCc
Confidence            9 7999999999973

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

Probab=97.73  E-value=1.1e-05  Score=74.84  Aligned_cols=71  Identities=15%  Similarity=0.180  Sum_probs=64.0

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .-++++.+...|..+|+|+++..--++.++-.+||+.|+|++.+.| .||..|||..|.|.+|.|.|+-.+.
T Consensus        82 eEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~g  153 (170)
T KOG0130|consen   82 EEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKG  153 (170)
T ss_pred             cchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecC
Confidence            3467788888999999999998888888888899999999999999 9999999999999999999998655

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

Probab=97.70  E-value=2.4e-05  Score=90.22  Aligned_cols=135  Identities=17%  Similarity=0.171  Sum_probs=100.8

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +.+.-+...+...|...+.+.++.+...+-.+..+|+|||+|...+.+ +|| .|+-..+.|                  
T Consensus       675 l~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV-~f~d~~~~g------------------  735 (881)
T KOG0128|consen  675 LSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAV-AFRDSCFFG------------------  735 (881)
T ss_pred             cchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhh-hhhhhhhhh------------------
Confidence            334444445555555555544444443444556799999999999999 777 444444444                  


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~ln  234 (634)
                                      +..|||.|.|+. .|.+.|+.+|.++|.+.+++++..     +|.|||.|.+..+|.+++..++
T Consensus       736 ----------------K~~v~i~g~pf~-gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d  798 (881)
T KOG0128|consen  736 ----------------KISVAISGPPFQ-GTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVD  798 (881)
T ss_pred             ----------------hhhhheeCCCCC-CchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccch
Confidence                            147999999995 999999999999999999987664     3799999999999999999998


Q ss_pred             C-ccCCeEEEEEeecCCC
Q 048615          235 A-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       235 g-~l~gR~IkV~wak~~~  251 (634)
                      . .++-+.+.|...++.+
T Consensus       799 ~~~~rE~~~~v~vsnp~~  816 (881)
T KOG0128|consen  799 VAGKRENNGEVQVSNPER  816 (881)
T ss_pred             hhhhhhcCccccccCCcc
Confidence            8 6777778888766533

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

Probab=97.67  E-value=2.5e-05  Score=82.91  Aligned_cols=163  Identities=16%  Similarity=0.154  Sum_probs=108.7

Q ss_pred             Ccccccccccccee-----eecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC-
Q 048615           82 TAAVSQNTSMSVWG-----RIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM-  154 (634)
Q Consensus        82 ~~~~s~~~~~svfg-----~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~-  154 (634)
                      ..+.+...+..+|+     .-+.+.+.+.  .+.+++--|-|||.|..+++| .|+.. |...++-|.|.+..+..... 
T Consensus       170 Pfdat~~dVv~FF~~~cpv~~g~egvLFV--~rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIElFRSTaaEvq  246 (508)
T KOG1365|consen  170 PFDATALDVVEFFGPPCPVTGGTEGVLFV--TRPDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIELFRSTAAEVQ  246 (508)
T ss_pred             CCCcchHHHHHhcCCCCcccCCccceEEE--ECCCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHHHHHhHHHHH
Confidence            34566677788886     2233333332  344555579999999999999 89866 66677777777654432210 


Q ss_pred             ------------CCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEE--EEEecCC-----C
Q 048615          155 ------------DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGE-VVD--IYIPLNS-----E  214 (634)
Q Consensus       155 ------------~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~--v~v~~dk-----g  214 (634)
                                  +.............-.+..+....|.+++||++ .+.++|..+|..|-. |..  |.|+.+.     |
T Consensus       247 qvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~-AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSG  325 (508)
T KOG1365|consen  247 QVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYE-ATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSG  325 (508)
T ss_pred             HHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChh-hhHHHHHHHHHHHhhhcccceeEEEEcCCCCcCh
Confidence                        000000000001111223344568999999995 999999999999864 333  6666653     5


Q ss_pred             eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          215 RAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       215 ~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      -|||+|.+.+.|..|....+. .+..|.|.|+-+.
T Consensus       326 eAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S  360 (508)
T KOG1365|consen  326 EAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS  360 (508)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence            899999999999999998887 5569999999774

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

Probab=97.64  E-value=0.0006  Score=72.50  Aligned_cols=144  Identities=16%  Similarity=0.133  Sum_probs=105.0

Q ss_pred             cccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCC-----------Cc
Q 048615           90 SMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMD-----------PS  157 (634)
Q Consensus        90 ~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~-----------~~  157 (634)
                      ++.+|=.+|.|..++.||+|     -|-|.|+.-+.... +|+..||+..+.|.+|.|..+.+.-..           +.
T Consensus       305 lFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgSpS  379 (494)
T KOG1456|consen  305 LFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGSPS  379 (494)
T ss_pred             hhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccCCceecCCCCcc
Confidence            56677778888888888887     47899999999999 999999999999999998876654311           11


Q ss_pred             cccccccccc--------cCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEecCC----CeEEEEeCCHH
Q 048615          158 TKAQNDHMRN--------IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIPLNS----ERAFVQFSKRE  224 (634)
Q Consensus       158 ~~~~~d~~~~--------~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~~dk----g~AFV~F~s~e  224 (634)
                      .+.+.....+        ....-.++.+.|...|.|.. +||+.|..+|..-+. -++|+|..-+    .-+.++|++.+
T Consensus       380 fKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~-vtEe~l~~i~nek~v~~~svkvFp~kserSssGllEfe~~s  458 (494)
T KOG1456|consen  380 FKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLG-VTEEQLIGICNEKDVPPTSVKVFPLKSERSSSGLLEFENKS  458 (494)
T ss_pred             hhhcccccccccCChhHhhcccccCCcceeEEecCCCc-cCHHHHHHHhhhcCCCcceEEeecccccccccceeeeehHH
Confidence            1111111000        00011245679999999995 999999999986543 4566666544    37999999999


Q ss_pred             HHHHHHHcCCC-ccCC
Q 048615          225 EAEAALKSPDA-VMGN  239 (634)
Q Consensus       225 ~A~~Ai~~lng-~l~g  239 (634)
                      +|..||..+|. .|.+
T Consensus       459 ~Aveal~~~NH~pi~~  474 (494)
T KOG1456|consen  459 DAVEALMKLNHYPIEG  474 (494)
T ss_pred             HHHHHHHHhccccccC
Confidence            99999999998 4543

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

Probab=97.63  E-value=0.00027  Score=78.04  Aligned_cols=147  Identities=18%  Similarity=0.194  Sum_probs=91.7

Q ss_pred             CccccccccccceeeecceeeeeccccccC--CCcCc---eEEEEcCCHHHHHHHhccCCceeCCEEEE--EccCcccCC
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKID--ATLNS---LDYLENETKEDREALPSLQGSYRRGKRII--EGDAIQKNM  154 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~--~~s~G---fgFVeF~~~e~A~Ai~~mnG~~l~GR~I~--V~~a~~k~~  154 (634)
                      ....++..+...|+++|++.+-=-.|....  .-.+|   |.|+.|+++..+.++.  +..........  |.-..-+..
T Consensus       268 p~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll--~aC~~~~~~~yf~vss~~~k~k  345 (520)
T KOG0129|consen  268 PWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLL--SACSEGEGNYYFKVSSPTIKDK  345 (520)
T ss_pred             CccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHH--HHHhhcccceEEEEecCccccc
Confidence            455677778888999998765322111111  12356   9999999998884332  12223333333  332222221


Q ss_pred             CCcc----ccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhc-cCCCEEEEEEecCC------CeEEEEeCCH
Q 048615          155 DPST----KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQ-KFGEVVDIYIPLNS------ERAFVQFSKR  223 (634)
Q Consensus       155 ~~~~----~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~Fs-kfG~I~~v~v~~dk------g~AFV~F~s~  223 (634)
                      .-..    -...+..... ...-.+.+|||||+||.- ++-.+|-.+|. -||.|..+-|..|+      |-|=|+|.+.
T Consensus       346 ~VQIrPW~laDs~fv~d~-sq~lDprrTVFVGgvprp-l~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnq  423 (520)
T KOG0129|consen  346 EVQIRPWVLADSDFVLDH-NQPIDPRRTVFVGGLPRP-LTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQ  423 (520)
T ss_pred             ceeEEeeEeccchhhhcc-CcccCccceEEecCCCCc-chHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeeccc
Confidence            0000    0000000000 011134689999999995 99999999999 69999999998884      5688999999


Q ss_pred             HHHHHHHHc
Q 048615          224 EEAEAALKS  232 (634)
Q Consensus       224 e~A~~Ai~~  232 (634)
                      .+-.+||.+
T Consensus       424 qsYi~AIsa  432 (520)
T KOG0129|consen  424 QAYIKAISA  432 (520)
T ss_pred             HHHHHHHhh
Confidence            999999875

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=97.61  E-value=0.00012  Score=57.76  Aligned_cols=52  Identities=37%  Similarity=0.705  Sum_probs=46.4

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHH
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL  230 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai  230 (634)
                      +.|-|.+.+++  ..+.+..+|..||+|+++.+.....+.||.|.++.+|++|+
T Consensus         2 ~wI~V~Gf~~~--~~~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPD--LAEEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECch--HHHHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            57899999996  56778889999999999998877789999999999999985

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

Probab=97.60  E-value=4.2e-05  Score=80.52  Aligned_cols=84  Identities=15%  Similarity=0.178  Sum_probs=63.6

Q ss_pred             ccCCCCCCc-------ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCce
Q 048615           67 ASDSADNDL-------PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSY  138 (634)
Q Consensus        67 ~~~~~~~~~-------~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~  138 (634)
                      |||+++.++       .|-+ +.+.++.+.+.-+|.++|.+..+..++++.++.+=-||||+|+++++. +|.-.|++..
T Consensus       227 vGDlpdAd~~PPeNVLFVCK-LNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvL  305 (479)
T KOG0415|consen  227 VGDLPDADVKPPENVLFVCK-LNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVL  305 (479)
T ss_pred             hcCCcccccCCCcceEEEEe-cCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhccee
Confidence            677765332       2222 456666666666666666666666677777777778999999999999 9999999999


Q ss_pred             eCCEEEEEccCcc
Q 048615          139 RRGKRIIEGDAIQ  151 (634)
Q Consensus       139 l~GR~I~V~~a~~  151 (634)
                      |+.|.|.|.++.+
T Consensus       306 IDDrRIHVDFSQS  318 (479)
T KOG0415|consen  306 IDDRRIHVDFSQS  318 (479)
T ss_pred             eccceEEeehhhh
Confidence            9999999997753

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.56  E-value=0.00023  Score=72.81  Aligned_cols=73  Identities=23%  Similarity=0.322  Sum_probs=66.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .+.+||+|+.+ .++.+++..+|+-||.|..|.|..++      +|+||+|.+.+.+..|+. |++ .|.|+.|.|.|.+
T Consensus       101 ~~sv~v~nvd~-~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r  178 (231)
T KOG4209|consen  101 APSVWVGNVDF-LVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKR  178 (231)
T ss_pred             CceEEEecccc-ccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeee
Confidence            47999999999 58988899999999999988887754      599999999999999999 888 8999999999987


Q ss_pred             CC
Q 048615          249 RD  250 (634)
Q Consensus       249 ~~  250 (634)
                      -.
T Consensus       179 ~~  180 (231)
T KOG4209|consen  179 TN  180 (231)
T ss_pred             ee
Confidence            55

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

Probab=97.49  E-value=7.8e-05  Score=73.72  Aligned_cols=60  Identities=10%  Similarity=0.065  Sum_probs=49.5

Q ss_pred             cccceeee-cceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           90 SMSVWGRI-GSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        90 ~~svfg~I-g~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ....|... |.|..++..+.+.+|.|+|||||+|++++.| -|...||+.-|.|+-+.|..-
T Consensus        66 ~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vm  127 (214)
T KOG4208|consen   66 ILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVM  127 (214)
T ss_pred             HhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEe
Confidence            34445555 6677776778899999999999999999999 899999999999998887744

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

Probab=97.41  E-value=6.2e-05  Score=74.91  Aligned_cols=75  Identities=21%  Similarity=0.170  Sum_probs=67.4

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      .+..+||||+|+-.. ++++-|.++|-+-|.|.+|.|+.++    .||||.|.+.-...-|++.+|| .+.++.|+|.+-
T Consensus         6 ae~drtl~v~n~~~~-v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r   84 (267)
T KOG4454|consen    6 AEMDRTLLVQNMYSG-VSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR   84 (267)
T ss_pred             cchhhHHHHHhhhhh-hhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccc
Confidence            344689999999996 9999999999999999999988754    4999999999999999999999 699999998875


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      .
T Consensus        85 ~   85 (267)
T KOG4454|consen   85 C   85 (267)
T ss_pred             c
Confidence            4

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

Probab=97.32  E-value=3.6e-05  Score=76.58  Aligned_cols=133  Identities=15%  Similarity=0.101  Sum_probs=98.2

Q ss_pred             CCCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           72 DNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        72 ~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      |.++.|.| +..-.+++.++.+|=..|+|..+.+.+.+-. .-+ ||||.|.++-.. -|+.-|||..+.++.|.|.+-.
T Consensus         9 drtl~v~n-~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~-~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~   85 (267)
T KOG4454|consen    9 DRTLLVQN-MYSGVSEELLSELFIQAGPVYKVGIPSGQDQ-EQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRC   85 (267)
T ss_pred             hhHHHHHh-hhhhhhHHHHHHHhhccCceEEEeCCCCccC-CCc-eeeeecccccchhhhhhhcccchhccchhhccccc
Confidence            34556666 5556788889999999999998877776654 335 999999999999 9999999999999998877432


Q ss_pred             ccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHH
Q 048615          151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREE  225 (634)
Q Consensus       151 ~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~  225 (634)
                      ...                      ..-     |.. .++++.+...|+.-|.|..+++..+.     .++||.+....+
T Consensus        86 G~s----------------------hap-----ld~-r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~  137 (267)
T KOG4454|consen   86 GNS----------------------HAP-----LDE-RVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCA  137 (267)
T ss_pred             CCC----------------------cch-----hhh-hcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhc
Confidence            111                      001     344 47888899999999999999987653     478887765555


Q ss_pred             HHHHHHcCCC
Q 048615          226 AEAALKSPDA  235 (634)
Q Consensus       226 A~~Ai~~lng  235 (634)
                      .-.++....+
T Consensus       138 ~P~~~~~y~~  147 (267)
T KOG4454|consen  138 VPFALDLYQG  147 (267)
T ss_pred             CcHHhhhhcc
Confidence            5555544433

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

Probab=97.25  E-value=0.0012  Score=67.75  Aligned_cols=87  Identities=30%  Similarity=0.408  Sum_probs=73.0

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      ..|.|+++|.| .+||.++. .++|++.|..||++..|-+.-++.-       .+. +++-|.|..|.+|++|+.  +|.
T Consensus        78 ~~~~~~~~v~v-~NL~~~V~-~~Dl~eLF~~~~~~~r~~vhy~~~G-------~s~-Gta~v~~~r~~DA~~avk~~~gv  147 (243)
T KOG0533|consen   78 INETRSTKVNV-SNLPYGVI-DADLKELFAEFGELKRVAVHYDRAG-------RSL-GTADVSFNRRDDAERAVKKYNGV  147 (243)
T ss_pred             ccCCCcceeee-ecCCcCcc-hHHHHHHHHHhccceEEeeccCCCC-------CCC-ccceeeecchHhHHHHHHHhcCc
Confidence            58999999999 79999998 8999999999999999888766521       233 799999999999999995  487


Q ss_pred             ccCCceeEEEEeCCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~~  555 (634)
                      .+.|..++|.=+.++..++
T Consensus       148 ~ldG~~mk~~~i~~~~~~~  166 (243)
T KOG0533|consen  148 ALDGRPMKIEIISSPSQSK  166 (243)
T ss_pred             ccCCceeeeEEecCccccc
Confidence            7889888888877665543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.20  E-value=0.00068  Score=71.21  Aligned_cols=71  Identities=20%  Similarity=0.455  Sum_probs=58.2

Q ss_pred             CEEEEeCCCCCCCCHH---HH--HHhhccCCCEEEEEEecCC-------C--eEEEEeCCHHHHHHHHHcCCC-ccCCeE
Q 048615          177 RTLFVNNVPLKSNRRE---AL--LSHFQKFGEVVDIYIPLNS-------E--RAFVQFSKREEAEAALKSPDA-VMGNRF  241 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~---~L--~~~FskfG~I~~v~v~~dk-------g--~AFV~F~s~e~A~~Ai~~lng-~l~gR~  241 (634)
                      .-+||-+||+...+|+   .|  .++|.+||.|..|.|.+.-       +  -.||+|.+.++|..||...+| .++||.
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~  194 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRV  194 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCce
Confidence            4689999998644444   23  3799999999999886532       2  349999999999999999999 899999


Q ss_pred             EEEEee
Q 048615          242 IKLWWA  247 (634)
Q Consensus       242 IkV~wa  247 (634)
                      |+..|.
T Consensus       195 lkatYG  200 (480)
T COG5175         195 LKATYG  200 (480)
T ss_pred             EeeecC
Confidence            999987

>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=97.14  E-value=0.00073  Score=60.40  Aligned_cols=83  Identities=17%  Similarity=0.140  Sum_probs=50.0

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEE-ecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVE-LEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~-~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g  540 (634)
                      +.+.|.|=|. |...  ...+.+||.+||+|.... +..... --...+-+...++..|+|.++.+|+||+.. |..|.|
T Consensus         5 ~~~wVtVFGf-p~~~--~~~Vl~~F~~~G~Ile~~~~~~~~~-~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g   80 (100)
T PF05172_consen    5 SETWVTVFGF-PPSA--SNQVLRHFSSFGTILEHFEVLRSSS-GINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSG   80 (100)
T ss_dssp             GCCEEEEE----GGG--HHHHHHHHHCCS-EECEEGGG-----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETT
T ss_pred             CCeEEEEEcc-CHHH--HHHHHHHHHhcceEEEeeccccccc-ccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcC
Confidence            4566777654 4433  579999999999997764 000000 000000112238999999999999999964 999987


Q ss_pred             -ceeEEEEeC
Q 048615          541 -HDLQFTWLM  549 (634)
Q Consensus       541 -~~l~l~W~~  549 (634)
                       -.+=+.|..
T Consensus        81 ~~mvGV~~~~   90 (100)
T PF05172_consen   81 SLMVGVKPCD   90 (100)
T ss_dssp             CEEEEEEE-H
T ss_pred             cEEEEEEEcH
Confidence             456677753

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.

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=97.11  E-value=0.0058  Score=62.51  Aligned_cols=93  Identities=20%  Similarity=0.319  Sum_probs=75.6

Q ss_pred             HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEE
Q 048615          129 EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIY  208 (634)
Q Consensus       129 ~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~  208 (634)
                      .|-.+|+|+...||.++|.++..                         ..|||.||.. .+.-+.|..-|+.||.|....
T Consensus         9 ~ak~eLd~~~~~~~~lr~rfa~~-------------------------a~l~V~nl~~-~~sndll~~~f~~fg~~e~av   62 (275)
T KOG0115|consen    9 IAKRELDGRFPKGRSLRVRFAMH-------------------------AELYVVNLMQ-GASNDLLEQAFRRFGPIERAV   62 (275)
T ss_pred             HHHHhcCCCCCCCCceEEEeecc-------------------------ceEEEEecch-hhhhHHHHHhhhhcCccchhe
Confidence            66678899999999999998752                         4899999999 599999999999999998766


Q ss_pred             EecC-C----CeEEEEeCCHHHHHHHHHcCC--C---ccCCeEEEEEee
Q 048615          209 IPLN-S----ERAFVQFSKREEAEAALKSPD--A---VMGNRFIKLWWA  247 (634)
Q Consensus       209 v~~d-k----g~AFV~F~s~e~A~~Ai~~ln--g---~l~gR~IkV~wa  247 (634)
                      +..| .    +-++|.|...-.|.+|+..+.  +   ...+++.-|.-.
T Consensus        63 ~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~  111 (275)
T KOG0115|consen   63 AKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM  111 (275)
T ss_pred             eeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence            5554 2    379999999999999998884  3   355676666543

>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=96.99  E-value=0.0016  Score=56.10  Aligned_cols=69  Identities=22%  Similarity=0.321  Sum_probs=47.9

Q ss_pred             CEEEEeCCCCCCCCHHH----HHHhhccCC-CEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          177 RTLFVNNVPLKSNRREA----LLSHFQKFG-EVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~----L~~~FskfG-~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +.|||.|||.+ .+...    |+.++.-+| .|..|.    .+.|+|.|.+.+.|.+|.+.|+| .+-|+.|.|.|....
T Consensus         3 s~L~V~NLP~~-~d~~~I~~RL~qLsdNCGGkVl~v~----~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~   77 (90)
T PF11608_consen    3 SLLYVSNLPTN-KDPSSIKNRLRQLSDNCGGKVLSVS----GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN   77 (90)
T ss_dssp             EEEEEES--TT-S-HHHHHHHHHHHHHTTT--EEE------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred             cEEEEecCCCC-CCHHHHHHHHHHHhhccCCEEEEEe----CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence            57999999995 77655    567777776 676663    57999999999999999999999 677888999998543

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>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=96.97  E-value=0.0013  Score=59.21  Aligned_cols=57  Identities=25%  Similarity=0.363  Sum_probs=39.1

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln  234 (634)
                      +.|+|.+++.+ ++.++|+.+|+.||.|..|.+.....-|||.|.+.+.|+.|+..+.
T Consensus         2 ~il~~~g~~~~-~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    2 CILKFSGLGEP-TSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             -EEEEEE--SS---HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHH
T ss_pred             eEEEEecCCCC-cCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHH
Confidence            57889999996 8999999999999999999988877799999999999999998763

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

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

Probab=96.74  E-value=0.0033  Score=69.26  Aligned_cols=71  Identities=28%  Similarity=0.508  Sum_probs=61.5

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      .-|.+.+||+ ++|+++|+++|+.+ .|.++.+.+.    .+=|||+|.+.+++++|++.-.-.|+.|.|.|+-+..
T Consensus        11 ~~vr~rGLPw-sat~~ei~~Ff~~~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~   85 (510)
T KOG4211|consen   11 FEVRLRGLPW-SATEKEILDFFSNC-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGG   85 (510)
T ss_pred             eEEEecCCCc-cccHHHHHHHHhcC-ceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCC
Confidence            5678899999 59999999999999 5888877775    3689999999999999999866689999999987743

>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=96.73  E-value=0.0067  Score=54.28  Aligned_cols=70  Identities=17%  Similarity=0.353  Sum_probs=53.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEE-------------EecCCCeEEEEeCCHHHHHHHHHcCCC-ccCC-e
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIY-------------IPLNSERAFVQFSKREEAEAALKSPDA-VMGN-R  240 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~-------------v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~g-R  240 (634)
                      .+.|.|-+.|+.  ....+..+|++||.|++..             +.....+-.|+|.++.+|.+||+. || +|+| -
T Consensus         6 ~~wVtVFGfp~~--~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~~   82 (100)
T PF05172_consen    6 ETWVTVFGFPPS--ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGSL   82 (100)
T ss_dssp             CCEEEEE---GG--GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTCE
T ss_pred             CeEEEEEccCHH--HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCcE
Confidence            468999999994  7788999999999999885             445567999999999999999986 55 7876 4


Q ss_pred             EEEEEeec
Q 048615          241 FIKLWWAN  248 (634)
Q Consensus       241 ~IkV~wak  248 (634)
                      .+-|.|.+
T Consensus        83 mvGV~~~~   90 (100)
T PF05172_consen   83 MVGVKPCD   90 (100)
T ss_dssp             EEEEEE-H
T ss_pred             EEEEEEcH
Confidence            56688874

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.

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=96.69  E-value=0.007  Score=53.85  Aligned_cols=73  Identities=22%  Similarity=0.367  Sum_probs=59.2

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhcc--CCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-cc----CCeEEE
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQK--FGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VM----GNRFIK  243 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~Fsk--fG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l----~gR~Ik  243 (634)
                      +||-|.|||.. .+.++|.+++..  .|..--+.++.|      .|||||.|.+++.|.+-.+.++| ..    ..+.+.
T Consensus         2 TTvMirNIPn~-~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~   80 (97)
T PF04059_consen    2 TTVMIRNIPNK-YTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE   80 (97)
T ss_pred             eeEEEecCCCC-CCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence            69999999995 999999988865  356666666655      37999999999999999999998 32    357789


Q ss_pred             EEeecCC
Q 048615          244 LWWANRD  250 (634)
Q Consensus       244 V~wak~~  250 (634)
                      |.||+-+
T Consensus        81 i~yAriQ   87 (97)
T PF04059_consen   81 ISYARIQ   87 (97)
T ss_pred             EehhHhh
Confidence            9999743

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

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

Probab=96.64  E-value=0.0036  Score=71.19  Aligned_cols=170  Identities=15%  Similarity=0.088  Sum_probs=108.3

Q ss_pred             CCcccccCCC-cccccccccccee-ee-cceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEcc
Q 048615           73 NDLPVRNAGT-AAVSQNTSMSVWG-RI-GSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGD  148 (634)
Q Consensus        73 ~~~~v~n~~~-~~~s~~~~~svfg-~I-g~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~  148 (634)
                      .+|+++-.+- ...+.+.++.+|- +. -.+....   ........|-++|+|....++ +|+.. |.+.+-.|.|.|..
T Consensus       310 d~~y~~~~gm~fn~~~nd~rkfF~g~~~~~~~l~~---~~v~~~~tG~~~v~f~~~~~~q~A~~r-n~~~~~~R~~q~~P  385 (944)
T KOG4307|consen  310 DKYYNNYKGMEFNNDFNDGRKFFPGRNAQSTDLSE---NRVAPPQTGRKTVMFTPQAPFQNAFTR-NPSDDVNRPFQTGP  385 (944)
T ss_pred             hhheeeecccccccccchhhhhcCcccccccchhh---hhcCCCcCCceEEEecCcchHHHHHhc-CchhhhhcceeecC
Confidence            4455433222 2345555666664 22 2233322   233333368899999999999 99854 88888899999876


Q ss_pred             CcccCC--CC----------cccccc---ccccc---cC---CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE-
Q 048615          149 AIQKNM--DP----------STKAQN---DHMRN---IR---KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-  206 (634)
Q Consensus       149 a~~k~~--~~----------~~~~~~---d~~~~---~~---~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~-  206 (634)
                      +.....  ..          .....+   ...+.   .+   +......-.|||.+||.. +++.++.++|..--.|++ 
T Consensus       386 ~g~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~-t~~~~~v~~f~~~~~Ved~  464 (944)
T KOG4307|consen  386 PGNLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVM-TPIVPPVNKFMGAAAVEDF  464 (944)
T ss_pred             CCccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCcc-ccccchhhhhhhhhhhhhe
Confidence            654321  00          000000   00000   00   011234578999999995 899999999998777777 


Q ss_pred             EEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          207 IYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       207 v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      |.|.+-+     .-|||.|...+++.+|...-.. .++.|.|+|.-.
T Consensus       465 I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si  511 (944)
T KOG4307|consen  465 IELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI  511 (944)
T ss_pred             eEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence            6665422     4899999999999999877666 788999999743

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

Probab=96.45  E-value=0.0013  Score=70.51  Aligned_cols=167  Identities=15%  Similarity=0.110  Sum_probs=112.6

Q ss_pred             CCCCCCcccccCCCccccccccccceeeecceeeeeccccccC---CCcCceEEEEcCCHHHHHHHhccCCceeCCEEEE
Q 048615           69 DSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKID---ATLNSLDYLENETKEDREALPSLQGSYRRGKRII  145 (634)
Q Consensus        69 ~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~---~~s~GfgFVeF~~~e~A~Ai~~mnG~~l~GR~I~  145 (634)
                      .+...-++|.| ..+..+-+.+..+||-||.|.....+..--+   .+.+-.|||.|.+...+-+.+.|-+++|-++.|.
T Consensus         4 g~~~~vIqvan-ispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdrali   82 (479)
T KOG4676|consen    4 GSSLGVIQVAN-ISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALI   82 (479)
T ss_pred             CCCCceeeecc-cCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEE
Confidence            33344556666 6778888889999998888776655442211   2346689999999999966668899999999998


Q ss_pred             EccCcccCCCCc--------------ccc-----cccccc--------cc-CCCCC----------CCCCEEEEeCCCCC
Q 048615          146 EGDAIQKNMDPS--------------TKA-----QNDHMR--------NI-RKPSQ----------KALRTLFVNNVPLK  187 (634)
Q Consensus       146 V~~a~~k~~~~~--------------~~~-----~~d~~~--------~~-~~~s~----------~~~~tLfVgnLp~d  187 (634)
                      |-+......+..              ...     .++..-        .. ..|.-          .-.++|+|++|+.+
T Consensus        83 v~p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~  162 (479)
T KOG4676|consen   83 VRPYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISA  162 (479)
T ss_pred             EEecCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhh
Confidence            876544332111              000     000000        00 00110          12468999999996


Q ss_pred             CCCHHHHHHhhccCCCEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCCcc
Q 048615          188 SNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDAVM  237 (634)
Q Consensus       188 ~~te~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng~l  237 (634)
                       +...++-++|..+|.|...++.-  +.-+|-|.|........|+..++-++
T Consensus       163 -~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr~~gre~  213 (479)
T KOG4676|consen  163 -AILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALRSHGRER  213 (479)
T ss_pred             -hcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHHhcchhh
Confidence             88999999999999998877654  23478899999999888888764443

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=96.16  E-value=0.0023  Score=65.32  Aligned_cols=63  Identities=17%  Similarity=0.388  Sum_probs=56.3

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCC------------------eEEEEeCCHHHHHHHHHcCCC-cc
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------------------RAFVQFSKREEAEAALKSPDA-VM  237 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg------------------~AFV~F~s~e~A~~Ai~~lng-~l  237 (634)
                      -.||+++||+ +++..-|+++|+.||.|-.|.+.+...                  -|+|+|.+...|..+...||+ .|
T Consensus        75 GVvylS~IPp-~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I  153 (278)
T KOG3152|consen   75 GVVYLSNIPP-YMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI  153 (278)
T ss_pred             eEEEeccCCC-ccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence            5899999999 599999999999999999999987431                  388999999999999999999 78


Q ss_pred             CCe
Q 048615          238 GNR  240 (634)
Q Consensus       238 ~gR  240 (634)
                      +|+
T Consensus       154 ggk  156 (278)
T KOG3152|consen  154 GGK  156 (278)
T ss_pred             CCC
Confidence            875

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

Probab=96.07  E-value=0.012  Score=63.00  Aligned_cols=128  Identities=19%  Similarity=0.199  Sum_probs=87.4

Q ss_pred             CceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccc-cCCCCCCCCCEEEEeCCCCCCCCHH
Q 048615          115 NSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRN-IRKPSQKALRTLFVNNVPLKSNRRE  192 (634)
Q Consensus       115 ~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~-~~~~s~~~~~tLfVgnLp~d~~te~  192 (634)
                      .|.+.|.|.+.|.- -|++. +...+++|.|.|-.+.....-   ...+..... ....+....--|.+++||++ +++.
T Consensus       102 nge~lvrf~d~e~RdlalkR-hkhh~g~ryievYka~ge~f~---~iagg~s~e~~~flsk~~qvivRmRGLPfd-at~~  176 (508)
T KOG1365|consen  102 NGEALVRFVDPEGRDLALKR-HKHHMGTRYIEVYKATGEEFL---KIAGGTSNEAAPFLSKENQVIVRMRGLPFD-ATAL  176 (508)
T ss_pred             ccceEEEecCchhhhhhhHh-hhhhccCCceeeeccCchhhe---EecCCccccCCCCCCcccceEEEecCCCCC-cchH
Confidence            68999999998887 77754 777889999999876654310   000000000 00111122356778999997 9999


Q ss_pred             HHHHhhccC----CCEEEEEEecC---C--CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          193 ALLSHFQKF----GEVVDIYIPLN---S--ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       193 ~L~~~Fskf----G~I~~v~v~~d---k--g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ++..+|..-    |.+..|-++..   +  |=|||.|...++|..|+......|+-|.|.++-+
T Consensus       177 dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRS  240 (508)
T KOG1365|consen  177 DVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRS  240 (508)
T ss_pred             HHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            999999732    23344433332   1  5899999999999999998777888888888655

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=96.06  E-value=0.0052  Score=66.73  Aligned_cols=60  Identities=28%  Similarity=0.364  Sum_probs=52.7

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-------------------CCeEEEEeCCHHHHHHHHHcCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-------------------SERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-------------------kg~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ..++|.+.|||.+ -.-+.|.++|+.||.|..|+|...                   +.||||+|...+.|.+|.+.++.
T Consensus       230 ~srtivaenLP~D-h~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  230 PSRTIVAENLPLD-HSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             ccceEEEecCCcc-hHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            4689999999998 566889999999999999998754                   13899999999999999999865

>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=96.02  E-value=0.019  Score=51.86  Aligned_cols=54  Identities=26%  Similarity=0.402  Sum_probs=35.5

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS  534 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~  534 (634)
                      .|.|.| ++...+ .++|+++|.+||+|.+|.+....             ..++|-|++-.+|++|+..
T Consensus         3 il~~~g-~~~~~~-re~iK~~f~~~g~V~yVD~~~G~-------------~~g~VRf~~~~~A~~a~~~   56 (105)
T PF08777_consen    3 ILKFSG-LGEPTS-REDIKEAFSQFGEVAYVDFSRGD-------------TEGYVRFKTPEAAQKALEK   56 (105)
T ss_dssp             EEEEEE---SS---HHHHHHHT-SS--EEEEE--TT--------------SEEEEEESS---HHHHHHH
T ss_pred             EEEEec-CCCCcC-HHHHHHHHHhcCCcceEEecCCC-------------CEEEEEECCcchHHHHHHH
Confidence            467754 666776 99999999999999999999876             7899999999999999864

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

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

Probab=95.65  E-value=0.00075  Score=78.21  Aligned_cols=147  Identities=18%  Similarity=0.182  Sum_probs=106.8

Q ss_pred             cccceeeecceeeeeccccccCCCcCceEEEEcCCHHHHHHHhccCCceeCCEEEEEccCcccCCCCccccccccccccC
Q 048615           90 SMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIR  169 (634)
Q Consensus        90 ~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~  169 (634)
                      .+.-|+-.+.|+.+...+.+......-++|+++....++++...+.|.-+.++.+.|..+.++......+...+..    
T Consensus       589 ~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~av~~ad~~~~~~~~kvs~n~~----  664 (881)
T KOG0128|consen  589 QRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSAAVGLADAEEKEENFKVSPNEI----  664 (881)
T ss_pred             hHHHhhcccccccccCccccccccccchhhhhhccccchhhcccccccccCCccccCCCCCchhhhhccCcCchHH----
Confidence            3566777777777766664444333338999999999995555889999999999988877655222211111111    


Q ss_pred             CCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec------CCCeEEEEeCCHHHHHHHHHcCCCccCCeEEE
Q 048615          170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL------NSERAFVQFSKREEAEAALKSPDAVMGNRFIK  243 (634)
Q Consensus       170 ~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~------dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~Ik  243 (634)
                          +..+++||.||++ .+.+.+|...|..||.|..+++..      -+|+|||.|...+++.+|+.-..+.+-| .++
T Consensus       665 ----R~~~~~fvsnl~~-~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g-K~~  738 (881)
T KOG0128|consen  665 ----RDLIKIFVSNLSP-KMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG-KIS  738 (881)
T ss_pred             ----HHHHHHHHhhcch-hhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh-hhh
Confidence                2257999999999 599999999999999988887652      2479999999999999999988885444 344


Q ss_pred             EEe
Q 048615          244 LWW  246 (634)
Q Consensus       244 V~w  246 (634)
                      |..
T Consensus       739 v~i  741 (881)
T KOG0128|consen  739 VAI  741 (881)
T ss_pred             hhe
Confidence            443

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=95.51  E-value=0.017  Score=59.24  Aligned_cols=61  Identities=21%  Similarity=0.129  Sum_probs=49.5

Q ss_pred             cccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           90 SMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        90 ~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +...|.-.|.+..+.++.++..+.++||+||+|.+.+.+ .|+. |||..|.|+.|.|.+-.-
T Consensus       118 ~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~  179 (231)
T KOG4209|consen  118 IELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRT  179 (231)
T ss_pred             hhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeee
Confidence            555566666665555567788777899999999999999 9997 999999999999886543

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

Probab=95.48  E-value=0.028  Score=58.54  Aligned_cols=59  Identities=24%  Similarity=0.362  Sum_probs=51.3

Q ss_pred             HHHHHHhhccCCCEEEEEEecCCC-------eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          191 REALLSHFQKFGEVVDIYIPLNSE-------RAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       191 e~~L~~~FskfG~I~~v~v~~dkg-------~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ++++..-+.+||.|.+|-|...++       .-||+|...++|.+|+-.||| .|+||.++..|.+-
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~  366 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL  366 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence            456778899999999998876553       689999999999999999999 89999999888753

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=95.34  E-value=0.014  Score=62.42  Aligned_cols=76  Identities=24%  Similarity=0.206  Sum_probs=64.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--------EEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--------IYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--------v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      .+-+|||.+||. ++++++|..+|.++|.|..        |.|.+++      +-|.|.|.+...|+.|+.-+++ .+.|
T Consensus        65 ~~~ti~v~g~~d-~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g  143 (351)
T KOG1995|consen   65 DNETIFVWGCPD-SVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG  143 (351)
T ss_pred             ccccceeeccCc-cchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence            357999999999 6999999999999998863        4444443      5799999999999999999999 7888


Q ss_pred             eEEEEEeecCCC
Q 048615          240 RFIKLWWANRDS  251 (634)
Q Consensus       240 R~IkV~wak~~~  251 (634)
                      ..|+|..|....
T Consensus       144 n~ikvs~a~~r~  155 (351)
T KOG1995|consen  144 NTIKVSLAERRT  155 (351)
T ss_pred             CCchhhhhhhcc
Confidence            999999996443

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

Probab=95.15  E-value=0.016  Score=64.77  Aligned_cols=72  Identities=22%  Similarity=0.321  Sum_probs=61.0

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-|....+|.| =.||..++ .++|+.-|..||||.-|..++...            .-++|.|.+-+.||+|+.  ++.
T Consensus        70 ~~~~~~~~L~v-~nl~~~Vs-n~~L~~~f~~yGeir~ir~t~~~~------------~~~~v~FyDvR~A~~Alk~l~~~  135 (549)
T KOG4660|consen   70 EKDMNQGTLVV-FNLPRSVS-NDTLLRIFGAYGEIREIRETPNKR------------GIVFVEFYDVRDAERALKALNRR  135 (549)
T ss_pred             cccCccceEEE-EecCCcCC-HHHHHHHHHhhcchhhhhcccccC------------ceEEEEEeehHhHHHHHHHHHHH
Confidence            44777889999 59999998 899999999999999988776653            789999999999999985  477


Q ss_pred             ccCCceeE
Q 048615          537 SWQGHDLQ  544 (634)
Q Consensus       537 ~~~g~~l~  544 (634)
                      .|.|++++
T Consensus       136 ~~~~~~~k  143 (549)
T KOG4660|consen  136 EIAGKRIK  143 (549)
T ss_pred             Hhhhhhhc
Confidence            77776666

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.13  E-value=0.075  Score=50.26  Aligned_cols=75  Identities=13%  Similarity=0.264  Sum_probs=59.2

Q ss_pred             CCCCCEEEEeCCCCC---CCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeec
Q 048615          173 QKALRTLFVNNVPLK---SNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN  248 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d---~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak  248 (634)
                      .++..||.|.=|...   .-+-..+....+.||+|.+|.+ ..+.-|.|.|.+..+|-+|+.++.....|..+.|+|..
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~-cGrqsavVvF~d~~SAC~Av~Af~s~~pgtm~qCsWqq  160 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTL-CGRQSAVVVFKDITSACKAVSAFQSRAPGTMFQCSWQQ  160 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeee-cCCceEEEEehhhHHHHHHHHhhcCCCCCceEEeeccc
Confidence            456789999766552   1223334456678999999874 67789999999999999999999988889999999975

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=94.85  E-value=0.066  Score=60.16  Aligned_cols=70  Identities=23%  Similarity=0.392  Sum_probs=56.5

Q ss_pred             CCEEEEeCCCCCCCCH-------HHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC--ccCCeE
Q 048615          176 LRTLFVNNVPLKSNRR-------EALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA--VMGNRF  241 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te-------~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng--~l~gR~  241 (634)
                      ...|+|.|+|-  +-.       .-|..+|+++|+|+++.++.+     +||.|++|.+..+|..|++.++|  ...++.
T Consensus        58 D~vVvv~g~Pv--V~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt  135 (698)
T KOG2314|consen   58 DSVVVVDGAPV--VGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT  135 (698)
T ss_pred             ceEEEECCCcc--cChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccce
Confidence            35888999986  232       345689999999999999875     36999999999999999999999  345777


Q ss_pred             EEEEee
Q 048615          242 IKLWWA  247 (634)
Q Consensus       242 IkV~wa  247 (634)
                      +.|.--
T Consensus       136 f~v~~f  141 (698)
T KOG2314|consen  136 FFVRLF  141 (698)
T ss_pred             EEeehh
Confidence            777543

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

Probab=94.85  E-value=0.021  Score=63.76  Aligned_cols=65  Identities=14%  Similarity=0.207  Sum_probs=50.2

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .+..+|+-||++-..+++...+..-   .+.||||.+.+.++| +.|..|+-++|+||-|-|..+....
T Consensus       421 DLKnlFSKyGKVvGAKVVTNaRsPG---aRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp  486 (940)
T KOG4661|consen  421 DLKNLFSKYGKVVGAKVVTNARSPG---ARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEP  486 (940)
T ss_pred             HHHHHHHHhcceeceeeeecCCCCC---cceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCc
Confidence            3445667777766666664433332   288999999999999 9999999999999999999876544

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=94.60  E-value=0.06  Score=60.80  Aligned_cols=75  Identities=16%  Similarity=0.196  Sum_probs=63.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhcc-CCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCc----cCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQK-FGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAV----MGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~Fsk-fG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~----l~gR~IkV~wak  248 (634)
                      +....|||.||-.- +|.-+|+.+..+ .|.|....|.+-+..|||.|.+.++|...+.+|+|+    -+.++|-+.|+.
T Consensus       442 ~~SnvlhI~nLvRP-FTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~  520 (718)
T KOG2416|consen  442 EPSNVLHIDNLVRP-FTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVR  520 (718)
T ss_pred             CccceEeeeccccc-chHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecc
Confidence            44678999999885 899999999995 566667666555678999999999999999999992    567999999985


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      .
T Consensus       521 ~  521 (718)
T KOG2416|consen  521 A  521 (718)
T ss_pred             h
Confidence            4

>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=94.39  E-value=0.099  Score=51.88  Aligned_cols=62  Identities=15%  Similarity=0.184  Sum_probs=48.4

Q ss_pred             CHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEEEEEeecCCC
Q 048615          190 RREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD--A-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       190 te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~IkV~wak~~~  251 (634)
                      ....|+.+|..|+.+......+.-+...|.|.+.+.|..|...++  + .++|..|+|+|+....
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~   72 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP   72 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred             hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence            567899999999999999888888899999999999999999999  7 7999999999995443

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.

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

Probab=94.39  E-value=0.021  Score=63.13  Aligned_cols=74  Identities=12%  Similarity=0.114  Sum_probs=54.4

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      ++|+| +....+...+.++|..+|.|+...+.....+++...||||+|.+.+++ .||.. +-..+++|++.|..-.
T Consensus       291 i~V~n-lP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~  365 (419)
T KOG0116|consen  291 IFVKN-LPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKR  365 (419)
T ss_pred             eEeec-CCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecc
Confidence            34444 444566666777777777777666665555556569999999999999 88866 6888999999997443

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=93.82  E-value=0.12  Score=54.28  Aligned_cols=65  Identities=18%  Similarity=0.272  Sum_probs=51.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      .|---+=|.|-|+-|. -  ..-|..||..||+|.+++...+.             +...|.|..|.+|.||+.+ |+.|
T Consensus       193 ~d~~D~WVTVfGFppg-~--~s~vL~~F~~cG~Vvkhv~~~ng-------------NwMhirYssr~~A~KALskng~ii  256 (350)
T KOG4285|consen  193 ADAADTWVTVFGFPPG-Q--VSIVLNLFSRCGEVVKHVTPSNG-------------NWMHIRYSSRTHAQKALSKNGTII  256 (350)
T ss_pred             cccccceEEEeccCcc-c--hhHHHHHHHhhCeeeeeecCCCC-------------ceEEEEecchhHHHHhhhhcCeee
Confidence            4555677777555333 2  45899999999999999887554             8999999999999999976 7777


Q ss_pred             CC
Q 048615          539 QG  540 (634)
Q Consensus       539 ~g  540 (634)
                      .|
T Consensus       257 ~g  258 (350)
T KOG4285|consen  257 DG  258 (350)
T ss_pred             cc
Confidence            65

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

Probab=93.47  E-value=0.19  Score=57.88  Aligned_cols=69  Identities=28%  Similarity=0.388  Sum_probs=57.6

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEE-EEEec-CC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPL-NS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~-v~v~~-dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +.|-|.|+|++ ++.++|.++|..|-.+-+ |.+.+ |.    |-|.|-|++.++|..|...+++ .|.+|.|+|.+
T Consensus       868 ~V~~~~n~Pf~-v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  868 RVLSCNNFPFD-VTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             eEEEecCCCcc-ccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            47889999996 999999999999965543 33333 22    4799999999999999999999 89999999865

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=93.29  E-value=0.2  Score=47.53  Aligned_cols=72  Identities=21%  Similarity=0.242  Sum_probs=55.2

Q ss_pred             cceEEEcCCCCCCCC---CHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccC
Q 048615          464 PTAFRIMPPLPVGFA---DVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQ  539 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~---~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~  539 (634)
                      --||.| -=|.-++.   |...+.+.++.||.|.+|.+-..              .+|+|.|++-.+|=+|+.. ....+
T Consensus        86 MsTIVV-RWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGr--------------qsavVvF~d~~SAC~Av~Af~s~~p  150 (166)
T PF15023_consen   86 MSTIVV-RWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGR--------------QSAVVVFKDITSACKAVSAFQSRAP  150 (166)
T ss_pred             ceeEEe-ehhhhcCChHHHHHHHHHHHHhcCCcceeeecCC--------------ceEEEEehhhHHHHHHHHhhcCCCC
Confidence            345555 34444433   24567788999999999987654              5899999999999999864 77899


Q ss_pred             CceeEEEEeCC
Q 048615          540 GHDLQFTWLMP  550 (634)
Q Consensus       540 g~~l~l~W~~~  550 (634)
                      |..++.+|...
T Consensus       151 gtm~qCsWqqr  161 (166)
T PF15023_consen  151 GTMFQCSWQQR  161 (166)
T ss_pred             CceEEeecccc
Confidence            99999999754

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

Probab=93.16  E-value=0.17  Score=56.56  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=52.6

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhh-cccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFS-SYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS  534 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~-~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~  534 (634)
                      .||+| +||+| |+||--++ .++|-..|. -||-|..|-|.-+      ...+-++ +++.|+|.+-++==+|+..
T Consensus       366 ~lDpr-rTVFV-Ggvprpl~-A~eLA~imd~lyGgV~yaGIDtD------~k~KYPk-GaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  366 PIDPR-RTVFV-GGLPRPLT-AEELAMIMEDLFGGVLYVGIDTD------PKLKYPK-GAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ccCcc-ceEEe-cCCCCcch-HHHHHHHHHHhcCceEEEEeccC------cccCCCC-CcceeeecccHHHHHHHhh
Confidence            48887 56788 99999997 899999998 8999999988654      2456566 7999999988777777543

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=93.04  E-value=0.04  Score=56.60  Aligned_cols=56  Identities=25%  Similarity=0.402  Sum_probs=47.1

Q ss_pred             HHHHhhc-cCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          193 ALLSHFQ-KFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       193 ~L~~~Fs-kfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +|...|+ +||+|.++.|-.+.     |-+||.|...++|++|++.||+ .++|++|.+.+..
T Consensus        84 d~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p  146 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence            3444444 89999999776654     5799999999999999999999 8999999999863

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=92.91  E-value=0.26  Score=51.86  Aligned_cols=70  Identities=23%  Similarity=0.300  Sum_probs=56.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCccCCe-EEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNR-FIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~l~gR-~IkV~wa  247 (634)
                      ..-|-|.+.|+.  .-..|..+|++||.|++.....+-.+-+|.|.++-+|.+||....-+|+|. .|-|.-+
T Consensus       197 D~WVTVfGFppg--~~s~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpC  267 (350)
T KOG4285|consen  197 DTWVTVFGFPPG--QVSIVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPC  267 (350)
T ss_pred             cceEEEeccCcc--chhHHHHHHHhhCeeeeeecCCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeec
Confidence            467888899995  778899999999999998777555699999999999999997654477764 4556554

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.86  E-value=0.12  Score=54.87  Aligned_cols=62  Identities=23%  Similarity=0.277  Sum_probs=45.6

Q ss_pred             ccceeeecceeeeeccccc-cCCCcCceE--EEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           91 MSVWGRIGSSKNRSNVKEK-IDATLNSLD--YLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        91 ~svfg~Ig~V~~~~~~k~k-~~~~s~Gfg--FVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      ...||++|.+..+..-+.. ......+.+  ||.|.++|+| ++|.+.+|..++||-|+..+...+
T Consensus       138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTTK  203 (480)
T COG5175         138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTTK  203 (480)
T ss_pred             hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCchH
Confidence            4568888876554332322 222334433  9999999999 999999999999999999877654

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=92.51  E-value=0.048  Score=57.97  Aligned_cols=72  Identities=18%  Similarity=0.370  Sum_probs=59.8

Q ss_pred             CEEEEeCCCCCCCCHHHHH--HhhccCCCEEEEEEecCC----C-----eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          177 RTLFVNNVPLKSNRREALL--SHFQKFGEVVDIYIPLNS----E-----RAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~--~~FskfG~I~~v~v~~dk----g-----~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      .-+||-+|+.+..++..|.  ++|.+||.|..|.+..+.    +     -++|+|...++|..||...+| +++||.|+.
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka  157 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA  157 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence            4678888988645555565  689999999999988765    1     489999999999999999999 789999888


Q ss_pred             Eeec
Q 048615          245 WWAN  248 (634)
Q Consensus       245 ~wak  248 (634)
                      .++.
T Consensus       158 ~~gt  161 (327)
T KOG2068|consen  158 SLGT  161 (327)
T ss_pred             hhCC
Confidence            8764

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

Probab=91.97  E-value=0.18  Score=54.48  Aligned_cols=71  Identities=15%  Similarity=0.271  Sum_probs=59.2

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC---------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS---------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk---------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ..|.|.||.+ +++.+++..+|.-.|.|..+.++++.         ..|||.|.+...+..|-...|.++=++.|-|-.+
T Consensus         8 ~vIqvanisp-sat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~   86 (479)
T KOG4676|consen    8 GVIQVANISP-SATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPY   86 (479)
T ss_pred             ceeeecccCc-hhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEec
Confidence            4899999999 59999999999999999999998743         3799999999999988777777766666666544


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      -
T Consensus        87 ~   87 (479)
T KOG4676|consen   87 G   87 (479)
T ss_pred             C
Confidence            3

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=91.47  E-value=0.76  Score=37.65  Aligned_cols=54  Identities=17%  Similarity=0.161  Sum_probs=43.8

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccC---CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKF---GEVVDIYIPLNSERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~Fskf---G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~l  233 (634)
                      .+|+|.|+..  ++.++++.+|..|   .....|..+-| .-|-|.|.+.+.|.+|+.+|
T Consensus         6 eavhirGvd~--lsT~dI~~y~~~y~~~~~~~~IEWIdD-tScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVDE--LSTDDIKAYFSEYFDEEGPFRIEWIDD-TSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCCC--CCHHHHHHHHHHhcccCCCceEEEecC-CcEEEEECCHHHHHHHHHcC
Confidence            4899999976  8999999999998   12446666655 45889999999999999875

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=91.06  E-value=0.64  Score=44.40  Aligned_cols=57  Identities=26%  Similarity=0.460  Sum_probs=45.5

Q ss_pred             HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCceeEEE-----EeCCC
Q 048615          480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDLQFT-----WLMPS  551 (634)
Q Consensus       480 ~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l~l~-----W~~~~  551 (634)
                      ...|.+-|.+||++.-|++.++               +..|||.+-++|=+|+. .|..+.|+.|+|+     |...-
T Consensus        50 ~~~ll~~~~~~GevvLvRfv~~---------------~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKtpdW~~~l  112 (146)
T PF08952_consen   50 MDELLQKFAQYGEVVLVRFVGD---------------TMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKTPDWLKGL  112 (146)
T ss_dssp             HHHHHHHHHCCS-ECEEEEETT---------------CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE---------
T ss_pred             HHHHHHHHHhCCceEEEEEeCC---------------eEEEEECccHHHHHHHccCCcEECCEEEEEEeCCccHHHHH
Confidence            4689999999999999988864               59999999999999986 4999999999987     76543

; PDB: 1UFW_A 2DNR_A.

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=90.64  E-value=0.16  Score=57.27  Aligned_cols=57  Identities=16%  Similarity=0.171  Sum_probs=47.3

Q ss_pred             cccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCE-EEEEc
Q 048615           90 SMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGK-RIIEG  147 (634)
Q Consensus        90 ~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR-~I~V~  147 (634)
                      +..+|.++|.+.++..+-+..++ .+||.|++|.+..+| .|++.+||..|+-. +..|.
T Consensus        81 l~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~  139 (698)
T KOG2314|consen   81 LTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR  139 (698)
T ss_pred             HHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence            56789999998888888776665 499999999999999 99999999988654 34554

>KOG2891 consensus Surface glycoprotein [General function prediction only]

Probab=90.36  E-value=0.41  Score=49.74  Aligned_cols=72  Identities=24%  Similarity=0.424  Sum_probs=50.7

Q ss_pred             CEEEEeCCCCCC-----------CCHHHHHHhhccCCCEEEEEEec-CC---------------Ce---------EEEEe
Q 048615          177 RTLFVNNVPLKS-----------NRREALLSHFQKFGEVVDIYIPL-NS---------------ER---------AFVQF  220 (634)
Q Consensus       177 ~tLfVgnLp~d~-----------~te~~L~~~FskfG~I~~v~v~~-dk---------------g~---------AFV~F  220 (634)
                      .|||+.+||..|           -+++-|+..|..||.|.+|.|+. |+               +|         |||+|
T Consensus       150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvqf  229 (445)
T KOG2891|consen  150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQF  229 (445)
T ss_pred             CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHHH
Confidence            489999988532           45788999999999999998864 32               12         56777


Q ss_pred             CCHHHHHHHHHcCCC-----ccCCeE----EEEEeec
Q 048615          221 SKREEAEAALKSPDA-----VMGNRF----IKLWWAN  248 (634)
Q Consensus       221 ~s~e~A~~Ai~~lng-----~l~gR~----IkV~wak  248 (634)
                      -..-....|+.++.|     .+++++    ++|+|.+
T Consensus       230 meykgfa~amdalr~~k~akk~d~~ffqanvkvdfdr  266 (445)
T KOG2891|consen  230 MEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDR  266 (445)
T ss_pred             HHHHhHHHHHHHHhcchHHhhcCCcccccccccccch
Confidence            766666677777766     244543    6777764

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=90.20  E-value=0.9  Score=43.38  Aligned_cols=73  Identities=26%  Similarity=0.292  Sum_probs=50.4

Q ss_pred             CCEEEEeCCC----CC-CCC---HHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          176 LRTLFVNNVP----LK-SNR---REALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp----~d-~~t---e~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ..||.|.=+.    .+ .++   -.+|.+.|..||+|+-||+.-+  .-+|+|.+-..|.+|+..-...++|+.|+|..-
T Consensus        27 DaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--~mwVTF~dg~sALaals~dg~~v~g~~l~i~LK  104 (146)
T PF08952_consen   27 DATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--TMWVTFRDGQSALAALSLDGIQVNGRTLKIRLK  104 (146)
T ss_dssp             T-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE-
T ss_pred             CceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--eEEEEECccHHHHHHHccCCcEECCEEEEEEeC
Confidence            4577776444    11 123   2367889999999998887764  789999999999999975444899999999877


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      .++
T Consensus       105 tpd  107 (146)
T PF08952_consen  105 TPD  107 (146)
T ss_dssp             ---
T ss_pred             Ccc
Confidence            654

; PDB: 1UFW_A 2DNR_A.

>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=89.97  E-value=0.31  Score=42.30  Aligned_cols=36  Identities=17%  Similarity=0.079  Sum_probs=28.6

Q ss_pred             CceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615          115 NSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus       115 ~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .+.|+|.|.+.+.| +|.+.|+|..+.|++|.|.+..
T Consensus        39 ~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~   75 (90)
T PF11608_consen   39 GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP   75 (90)
T ss_dssp             TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred             CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence            67899999999999 9999999999999999999774

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=89.57  E-value=0.45  Score=49.90  Aligned_cols=54  Identities=20%  Similarity=0.243  Sum_probs=36.7

Q ss_pred             ceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEcc
Q 048615           93 VWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGD  148 (634)
Q Consensus        93 vfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~  148 (634)
                      -||+++.|.+-.++-...+..  ---||+|...+.| +|+..|||++|+||.++..+
T Consensus       309 Kyg~V~~viifeip~~p~dea--vRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F  363 (378)
T KOG1996|consen  309 KYGKVGNVIIFEIPSQPEDEA--VRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF  363 (378)
T ss_pred             hhcceeeEEEEecCCCccchh--heeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence            345555544443322222211  1369999999999 99999999999999877543

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

Probab=88.68  E-value=0.12  Score=60.88  Aligned_cols=73  Identities=23%  Similarity=0.318  Sum_probs=61.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||++||+.. +++.+|+..|..||.|.+|.|...+     -|+||.|.+...+-.|...+.+ .|..-.+++-+.
T Consensus       370 ~atrTLf~Gnl~~k-l~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG  448 (975)
T KOG0112|consen  370 RATRTLFLGNLDSK-LTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG  448 (975)
T ss_pred             hhhhhhhhcCcccc-hhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence            34789999999995 9999999999999999999986642     3999999999999999999988 454435555555

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

Probab=88.60  E-value=0.43  Score=52.21  Aligned_cols=72  Identities=15%  Similarity=0.107  Sum_probs=57.9

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC--ccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA--VMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng--~l~gR~IkV~wak~  249 (634)
                      .++|++||.+. .+..+|..+|...---.+-.++...+|+||.+.+..-|.+|++.++|  .+.|.++.|...-+
T Consensus         2 nklyignL~p~-~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~   75 (584)
T KOG2193|consen    2 NKLYIGNLSPQ-VTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP   75 (584)
T ss_pred             CcccccccCCC-CChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence            37999999995 99999999998642111222344568999999999999999999999  58899999988743

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=87.24  E-value=2.3  Score=34.93  Aligned_cols=56  Identities=27%  Similarity=0.343  Sum_probs=43.0

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcc---cceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSY---GDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS  534 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~f---Gei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~  534 (634)
                      -||.+|.|.|.  ++++ -++++.||..|   .....|+--++              .++-|-|.+-..|-+|+..
T Consensus         3 ~rpeavhirGv--d~ls-T~dI~~y~~~y~~~~~~~~IEWIdD--------------tScNvvf~d~~~A~~AL~~   61 (62)
T PF10309_consen    3 IRPEAVHIRGV--DELS-TDDIKAYFSEYFDEEGPFRIEWIDD--------------TSCNVVFKDEETAARALVA   61 (62)
T ss_pred             ceeceEEEEcC--CCCC-HHHHHHHHHHhcccCCCceEEEecC--------------CcEEEEECCHHHHHHHHHc
Confidence            48899999753  4454 78999999988   23557765554              4788999999999999863

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=86.95  E-value=0.2  Score=51.52  Aligned_cols=53  Identities=23%  Similarity=0.330  Sum_probs=39.7

Q ss_pred             eecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           96 RIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        96 ~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ++|+|..+ .+-+....-..|-.||.|...++| .|+..|||.++.|++|.....
T Consensus        92 kygEiee~-~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   92 KYGEIEEL-NVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             Hhhhhhhh-hhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            44444443 122333334578899999999999 999999999999999998754

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=86.86  E-value=1.1  Score=40.05  Aligned_cols=48  Identities=10%  Similarity=-0.011  Sum_probs=34.5

Q ss_pred             eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeC----CEEEEEccCc
Q 048615          100 SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRR----GKRIIEGDAI  150 (634)
Q Consensus       100 V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~----GR~I~V~~a~  150 (634)
                      +-...|.+.+.+   .|||||.|.+.+.| +-...++|+.|.    .+...|.+|.
T Consensus        33 ~YLPiDf~~~~N---~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAr   85 (97)
T PF04059_consen   33 FYLPIDFKNKCN---LGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYAR   85 (97)
T ss_pred             EEeeeeccCCCc---eEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhH
Confidence            333444444444   89999999999999 999999998874    3444566554

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=86.79  E-value=0.37  Score=56.65  Aligned_cols=71  Identities=18%  Similarity=0.203  Sum_probs=62.3

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecC
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANR  249 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~  249 (634)
                      +.++.|.+- ..+...|..+|++||.|.+++..++-..|.|+|.+.+.|..|+.+++|   .+.|-+.+|.||+.
T Consensus       300 ~~~~~nn~v-~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~  373 (1007)
T KOG4574|consen  300 KQSLENNAV-NLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT  373 (1007)
T ss_pred             hhhhhcccc-cchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence            455556666 478899999999999999999999999999999999999999999999   26688999999974

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=85.05  E-value=2.1  Score=48.46  Aligned_cols=94  Identities=14%  Similarity=0.110  Sum_probs=69.9

Q ss_pred             CHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhcc--
Q 048615          124 TKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQK--  200 (634)
Q Consensus       124 ~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~Fsk--  200 (634)
                      |.+-. +++.+.-+..++.+-.+|....                        ..|-|.++-||. +.-+++++.+|..  
T Consensus       146 DvdLI~Evlresp~VqvDekgekVrp~~------------------------kRcIvilREIpe-ttp~e~Vk~lf~~en  200 (684)
T KOG2591|consen  146 DVDLIVEVLRESPNVQVDEKGEKVRPNH------------------------KRCIVILREIPE-TTPIEVVKALFKGEN  200 (684)
T ss_pred             chHHHHHHHhcCCCceeccCccccccCc------------------------ceeEEEEeecCC-CChHHHHHHHhccCC
Confidence            33444 7777777777766666655221                        136788899999 5899999999985  


Q ss_pred             CCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEE
Q 048615          201 FGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIK  243 (634)
Q Consensus       201 fG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~Ik  243 (634)
                      +-.+++|....+.+ =||+|.+..+|+.|++.+..   .|-|++|.
T Consensus       201 cPk~iscefa~N~n-WyITfesd~DAQqAykylreevk~fqgKpIm  245 (684)
T KOG2591|consen  201 CPKVISCEFAHNDN-WYITFESDTDAQQAYKYLREEVKTFQGKPIM  245 (684)
T ss_pred             CCCceeeeeeecCc-eEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence            77888888766655 49999999999999998865   46676544

>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing

Probab=83.48  E-value=2.4  Score=44.77  Aligned_cols=85  Identities=14%  Similarity=0.248  Sum_probs=60.3

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc--------
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS--------  534 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~--------  534 (634)
                      |++.|.. -.+...+. --.+..+|..||-|++|-+-+..+..+++--+-..++|..++|-+|...=.+..+        
T Consensus        14 rTRSLLf-eNv~~sid-Lh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEf   91 (309)
T PF10567_consen   14 RTRSLLF-ENVNNSID-LHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEF   91 (309)
T ss_pred             eeHHHHH-hhcccccc-HHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHH
Confidence            5777777 35555553 6789999999999999999887632222222223348999999999988776432        


Q ss_pred             CCccCCceeEEEEeC
Q 048615          535 GKSWQGHDLQFTWLM  549 (634)
Q Consensus       535 g~~~~g~~l~l~W~~  549 (634)
                      .+..+...|.|+++.
T Consensus        92 K~~L~S~~L~lsFV~  106 (309)
T PF10567_consen   92 KTKLKSESLTLSFVS  106 (309)
T ss_pred             HHhcCCcceeEEEEE
Confidence            445677888888877

It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=83.36  E-value=0.69  Score=49.04  Aligned_cols=72  Identities=8%  Similarity=0.073  Sum_probs=60.5

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+.+++...|+..+.+..++.+....++...|||||.|.....+ .++.. +...+.++++++....+.+
T Consensus       193 ~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  265 (285)
T KOG4210|consen  193 LDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRP  265 (285)
T ss_pred             cccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCc
Confidence            555677788778888888888888888888888999999999999998 88876 8899999999999776543

>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.10  E-value=1.8  Score=45.49  Aligned_cols=27  Identities=41%  Similarity=0.572  Sum_probs=14.7

Q ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHH
Q 048615          325 PLQKKLDNLEQLKEELRKKQELLDQKR  351 (634)
Q Consensus       325 ~~~KkqE~le~~~e~~kkKqelL~kq~  351 (634)
                      .+++||++|+++++++++|.+-|+++.
T Consensus        61 ~~~~kq~eL~~rqeEL~Rke~ELdRRE   87 (313)
T KOG3088|consen   61 DLAKKQAELLKKQEELRRKEQELDRRE   87 (313)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            355566666666666555544444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	634
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	1e-12
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-11
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	3e-11
1x5p_A	97	Negative elongation factor E; structure genomics,	2e-10
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	2e-10
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	4e-10
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	8e-10
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	2e-09
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-09
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-07
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	7e-05
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	3e-09
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	4e-09
2dis_A	109	Unnamed protein product; structural genomics, RRM	4e-09
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	4e-09
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	4e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-09
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	6e-09
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	6e-09
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	6e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	6e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-08
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-05
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	6e-09
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	6e-09
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	7e-09
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	8e-09
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	8e-09
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	4e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	1e-08
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	1e-08
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	1e-08
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-08
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	9e-06
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-08
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-08
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	2e-08
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-08
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	3e-08
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	3e-08
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	1e-07
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	3e-08
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	4e-08
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	4e-08
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	4e-08
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	6e-08
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	6e-08
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	7e-08
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	8e-08
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	8e-08
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	8e-08
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	8e-08
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	8e-08
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-07
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	1e-07
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	1e-07
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-07
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	1e-06
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-07
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-06
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	2e-07
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-07
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	4e-07
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	4e-07
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	1e-05
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	4e-07
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	4e-07
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	4e-07
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	5e-07
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	2e-06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	5e-07
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	5e-07
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	6e-07
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	6e-07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	7e-07
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	8e-07
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	9e-07
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	1e-06
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	1e-06
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	1e-06
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-06
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-06
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-06
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-06
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	2e-06
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	2e-06
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-06
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	3e-06
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	3e-06
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	3e-06
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	3e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	3e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	3e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	4e-06
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	4e-06
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	4e-06
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	4e-06
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	5e-06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	5e-06
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	5e-06
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-06
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-06
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	5e-06
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	6e-06
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	7e-06
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	7e-06
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	8e-06
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	8e-06
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	9e-06
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	9e-06
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	9e-06
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	1e-05
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	1e-05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	1e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	1e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	3e-05
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	1e-05
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	1e-05
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	1e-05
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	2e-05
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	2e-05
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-05
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	2e-05
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	2e-05
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-05
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	2e-05
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	2e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	3e-05
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	4e-05
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	5e-05
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	5e-05
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	5e-05
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	5e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	6e-05
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	6e-05
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	9e-05
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	1e-04
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	1e-04
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-04
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	1e-04
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	1e-04
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	1e-04
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	2e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-04
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	2e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	2e-04
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	2e-04
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-04
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	3e-04
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	3e-04
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	4e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	4e-04
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	5e-04
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-04
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	5e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	5e-04
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	6e-04
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	6e-04
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	7e-04

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 62.7 bits (153), Expect = 1e-12
 Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL 230
              K + TL+V  +         L +HF +FGE+  I +    + AF+QF+ R+ AE A 
Sbjct: 7   GEDKTITTLYVGGLGDTITE-TDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAA 65

Query: 231 KSPD--AVMGNRFIKLWWA 247
           +      ++  R + + W 
Sbjct: 66  EKSFNKLIVNGRRLNVKWG 84

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 60.8 bits (148), Expect = 1e-11
 Identities = 17/94 (18%), Positives = 33/94 (35%), Gaps = 5/94 (5%)

Query: 156 PSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER 215
                  DH+     P      T ++ N+P  +     L+  FQ FG ++D         
Sbjct: 10  QVNPQAVDHIIRSAPPRV---TTAYIGNIPHFATE-ADLIPLFQNFGFILDFKHYPEKGC 65

Query: 216 AFVQFSKREEAEAALKSPD-AVMGNRFIKLWWAN 248
            F+++   E+A   + +        R ++  W  
Sbjct: 66  CFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK 99

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 57.3 bits (139), Expect = 2e-10
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 4/81 (4%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-A 235
            TL+V    +       L   F  FG ++D+ +      AFV + K E A+ A+   +  
Sbjct: 16  NTLYVYGEDMTP---TLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGT 72

Query: 236 VMGNRFIKLWWANRDSIPDDG 256
            + +  +K+  A +  + D G
Sbjct: 73  QVESVQLKVNIARKQPMLDSG 93

>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 = 57.9 bits (140), Expect = 2e-10
 Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 7/109 (6%)

Query: 141 GKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQK 200
              ++   +   +M    +       +           + +  +P K+   + + + F  
Sbjct: 11  SSGLVPRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATEND-IYNFFSP 69

Query: 201 FGEVVDIYIPLNSER-----AFVQFSKREEAEAALKSPDAVMGNRFIKL 244
               V ++I +  +      A V+F+  EEA AA+    A M +R+I+L
Sbjct: 70  LN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIEL 117

>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 = 56.5 bits (137), Expect = 4e-10
 Identities = 22/96 (22%), Positives = 42/96 (43%), Gaps = 10/96 (10%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFSK 222
            P ++    + V N+P ++N+RE +   F  FGE+  + +P             FV F  
Sbjct: 9   VPKKQTTSKILVRNIPFQANQRE-IRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFIT 67

Query: 223 REEAEAALKSPD--AVMGNRFIKLWWANRDSIPDDG 256
           +++A+ A  +      +  R + L WA+ +     G
Sbjct: 68  KQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSG 103

>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 = 55.4 bits (134), Expect = 8e-10
 Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 7/103 (6%)

Query: 156 PSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALL-SHFQKFGEVVDIYIPLNSE 214
            + + + + + N   P      T++     + S   + L+   F  FG++++I +     
Sbjct: 8   NTKQLRFEDVVNQSSPKN---CTVYCGG--IASGLTDQLMRQTFSPFGQIMEIRVFPEKG 62

Query: 215 RAFVQFSKREEAEAALKSPD-AVMGNRFIKLWWANRDSIPDDG 256
            +FV+FS  E A  A+ S +   +    +K +W         G
Sbjct: 63  YSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPDMTSG 105

>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 Length = 97

 Score = 54.2 bits (131), Expect = 2e-09
 Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 4/86 (4%)

Query: 157 STKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERA 216
           S+   + H   +          LF+ N+PLK+  +E L   F  +G ++ I I   +   
Sbjct: 3   SSHHHHHHSSGLVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI--KNAFG 60

Query: 217 FVQFSKREEAEAALKSPD--AVMGNR 240
           F+QF   +    A++        G +
Sbjct: 61  FIQFDNPQSVRDAIEXESQEMNFGKK 86

>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 = 57.7 bits (140), Expect = 3e-09
 Identities = 30/139 (21%), Positives = 58/139 (41%), Gaps = 19/139 (13%)

Query: 119 YLENETKEDRE-ALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALR 177
           Y++  +KED    +  L G    G  ++   +     +P  K++      +        R
Sbjct: 163 YIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS-----NPLEKSKRTDSATLEG------R 211

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFSKREEAEAAL 230
            + + N+  +      L   F+ FG +  I IP   +        AF+ F  ++ AE AL
Sbjct: 212 EIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL 271

Query: 231 KSPDAVMGNRFIKLWWANR 249
           +   +++GNR I +  A++
Sbjct: 272 QMNRSLLGNREISVSLADK 290

>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 = 51.1 bits (123), Expect = 4e-07
 Identities = 18/88 (20%), Positives = 41/88 (46%), Gaps = 10/88 (11%)

Query: 165 MRNIRKPSQKALR-----TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---- 215
               +K ++   R     T+ V N+P KS  +  +  +F+  G ++ + +  + ++    
Sbjct: 25  GLTSKKANEALTRNRELTTVLVKNLP-KSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRF 83

Query: 216 AFVQFSKREEAEAALKSPDAVMGNRFIK 243
           A ++F++ + A AA+     V+G   I 
Sbjct: 84  ARIEFARYDGALAAITKTHKVVGQNEII 111

>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 = 44.2 bits (105), Expect = 7e-05
 Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 8/82 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEV-VDIYIPLNSER-----AFVQFSKREEAEAAL 230
            TL++ N P  S  +  +    Q    V + I +P          A++  + +E+A   +
Sbjct: 118 CTLWMTNFP-PSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCV 176

Query: 231 KSPD-AVMGNRFIKLWWANRDS 251
           +  +   +    +    +N   
Sbjct: 177 EKLNGLKIEGYTLVTKVSNPLE 198

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 55.2 bits (133), Expect = 3e-09
 Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 12/103 (11%)

Query: 155 DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE 214
           D   +  N+    + K S     TL+V N+   +   E +   F K G++  I + L+  
Sbjct: 22  DQHFRGDNEEQEKLLKKS----CTLYVGNLSFYTTE-EQIYELFSKSGDIKKIIMGLDKM 76

Query: 215 R------AFVQFSKREEAEAALKSPD-AVMGNRFIKLWWANRD 250
           +       FV++  R +AE A++  +   + +R I+  W    
Sbjct: 77  KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGF 119

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 53.7 bits (129), Expect = 4e-09
 Identities = 20/105 (19%), Positives = 42/105 (40%), Gaps = 11/105 (10%)

Query: 154 MDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS 213
           M  S    +        PS    R + +  +P+     E ++S    FG+V ++ +    
Sbjct: 1   MRGSHHHHH---HGSGVPS----RVIHIRKLPIDVTEGE-VISLGLPFGKVTNLLMLKGK 52

Query: 214 ERAFVQFSKREEAEAALK---SPDAVMGNRFIKLWWANRDSIPDD 255
            +AF++ +  E A   +    S   V+  + I + ++N   +  D
Sbjct: 53  NQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTD 97

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 53.6 bits (129), Expect = 4e-09
 Identities = 25/103 (24%), Positives = 37/103 (35%), Gaps = 13/103 (12%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--------AFVQFSKREEAEA 228
             LF+  +P K  +RE +L    K  E V   I   S          AFV++     A  
Sbjct: 9   CRLFIGGIP-KMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAM 67

Query: 229 ALK---SPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHG 268
           A +        +    I + WA  +   D+ +    VS  S G
Sbjct: 68  ARRKLMPGRIQLWGHQIAVDWAEPEIDVDEDVME-TVSGPSSG 109

>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 = 53.6 bits (129), Expect = 4e-09
 Identities = 13/86 (15%), Positives = 30/86 (34%), Gaps = 4/86 (4%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK---SP 233
             + V  +       + L+   +KFG +  + +     +A V+F   + A+  +      
Sbjct: 16  PVVHVRGLCESVVEAD-LVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADV 74

Query: 234 DAVMGNRFIKLWWANRDSIPDDGISG 259
              +  +     ++    I   G SG
Sbjct: 75  PVYIAGQQAFFNYSTSKRITRPGNSG 100

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 54.1 bits (130), Expect = 4e-09
 Identities = 12/103 (11%), Positives = 42/103 (40%), Gaps = 7/103 (6%)

Query: 156 PSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNR---REALLSHFQKFGEVVDIYIPLN 212
              +  +        P  +  + + + N+  +  +   +  L +     G+++DI + L+
Sbjct: 9   FERQHMDSPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS 68

Query: 213 SE---RAFVQFSKREEAEAALKSPDAVM-GNRFIKLWWANRDS 251
            +   +A++ F+ +E A+A +++          + + ++    
Sbjct: 69  DDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSETPQ 111

>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 = 58.7 bits (141), Expect = 5e-09
 Identities = 70/455 (15%), Positives = 133/455 (29%), Gaps = 137/455 (30%)

Query: 194 LLSHF-QKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSI 252
           +LS F   F +  D     +  ++    SK EE +  + S DAV G   +  W     ++
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMPKSI--LSK-EEIDHIIMSKDAVSGTLRL-FW-----TL 71

Query: 253 PDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDN-NLQSTTLKGGNIVPAADVSLPAPD 311
                  V             F     V   ++ N     + +K     P+    +    
Sbjct: 72  LSKQEEMV-----------QKF-----VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115

Query: 312 HPTVITNSPKPPPPLQ----KKLDNLEQLKEELRKKQELLDQKRNDFRRQLDKLEKQAG- 366
               + N  +          +    L Q   ELR  + +L             ++   G 
Sbjct: 116 R-DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL-------------IDGVLGS 161

Query: 367 GKSDVVSEKAAKRLKVGIAAD--VAKATARSSDSTAAVASPRAEMMADKNKLVDIVLSPS 424
           GK+ V  +      KV    D  +     ++ +      SP   +   +  L  I  + +
Sbjct: 162 GKTWVALD-VCLSYKVQCKMDFKIFWLNLKNCN------SPETVLEMLQKLLYQIDPNWT 214

Query: 425 QKVNTAMVLQEST-SFKQQIRPLAPAGPPFLMNRYK-----LDNRPTAFRIMPPLPVGFA 478
            + + +  ++    S + ++R L           Y+     L                  
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRL------LKSKPYENCLLVLL----------------- 251

Query: 479 DVAVLKEHFSSYGDLASVELEDGEVLEG-DNGSDASKNCQVRVSFTTRRSAERAFLSGKS 537
           +V                  ++ +     +        C++ +  TTR      FLS  +
Sbjct: 252 NV------------------QNAKAWNAFNLS------CKILL--TTRFKQVTDFLSAAT 285

Query: 538 WQGHDLQFTWLMPSSSSNDLGNKEKTSTFLK--GSSDTDVQKEEKLSS--VVSQEAAA-- 591
                L          S  L   E  S  LK       D+ +E   ++   +S  A +  
Sbjct: 286 TTHISLDH-------HSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338

Query: 592 SGNAESENSER----------KSSVEH---AELQE 613
            G A  +N +           +SS+     AE ++
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

>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 = 2e-06
 Identities = 76/450 (16%), Positives = 136/450 (30%), Gaps = 119/450 (26%)

Query: 136 GSYRRGKRIIEGDAIQKN----MDPSTKAQNDHMRNIRKPS---QKALRTLFVNNVPLKS 188
            +    + ++E   + +     +DP+  +++DH  NI+      Q  LR L  +      
Sbjct: 190 KNCNSPETVLE---MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK----- 241

Query: 189 NRREALL--------SHFQKFG------------EVVDIYIPLNSERAFVQFSKREEAEA 228
                LL          +  F             +V D      +    +     +    
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL-----DHHSM 296

Query: 229 ALKSPDAVMGNRFIKLWWAN--RDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKD 286
            L +PD V     +K  + +     +P + ++    +     + A S     +  +  K 
Sbjct: 297 TL-TPDEVKS-LLLK--YLDCRPQDLPREVLTT---NPRRLSIIAESIRDGLATWDNWKH 349

Query: 287 NNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSPKPPPPLQKKLDNLEQLKEELRKKQEL 346
            N    T     I+   + SL   +           P   +K  D L            L
Sbjct: 350 VNCDKLT----TII---ESSLNVLE-----------PAEYRKMFDRLSVFPPSAHIPTIL 391

Query: 347 L-----DQKRNDFRRQLDKLEKQAGGKSDVVSEKAAKRLKVGIAADVAKATARSSDSTAA 401
           L     D  ++D    ++KL K     S V  EK  K   + I   +        ++  A
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHK----YSLV--EKQPKESTISI-PSIYLELKVKLENEYA 444

Query: 402 -----VASPRAEMMADKNKLVDIVL---------------SPSQKVNTAMVLQESTSF-K 440
                V         D + L+   L                  +++    ++     F +
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504

Query: 441 QQIR--PLAPAGPPFLMN------RYK---LDNRPTAFRIMPPLPVGFADVAVLKEHFSS 489
           Q+IR    A      ++N       YK    DN P   R++  + + F          S 
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI-LDFLPKIEENLICSK 563

Query: 490 YGDLASVEL--EDGEVLEGDNGSDASKNCQ 517
           Y DL  + L  ED  + E     +A K  Q
Sbjct: 564 YTDLLRIALMAEDEAIFE-----EAHKQVQ 588

>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 = 47.9 bits (113), Expect = 9e-06
 Identities = 49/293 (16%), Positives = 85/293 (29%), Gaps = 113/293 (38%)

Query: 36  DTSPGLAALHSSNDETESLLNEDSSNNHHLRASDSADNDLPVRNAGT---------AAVS 86
             S  L     + DE +SLL         L+  D    DLP     T          ++ 
Sbjct: 293 HHSMTL-----TPDEVKSLL---------LKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338

Query: 87  QNTSMS-VWGRIGSSKNRSNVKEKIDATLNSLD-------Y----------------LE- 121
              +    W  +   K    +   I+++LN L+       +                L  
Sbjct: 339 DGLATWDNWKHVNCDK----LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394

Query: 122 ---NETKEDRE---------------------ALPSLQGSYRRG--------KRIIEGDA 149
              +  K D                       ++PS+    +          + I++   
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454

Query: 150 IQKNMDPS--TKAQND---------HMRNIRKPSQKAL-RTLFVN---------NVPLKS 188
           I K  D         D         H++NI  P +  L R +F++         +     
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514

Query: 189 NRREALLSHFQKFGEVVDIYIPLNS---ER---AFVQFSKREEAEAALKSPDA 235
           N   ++L+  Q+  +    YI  N    ER   A + F  + E E  + S   
Sbjct: 515 NASGSILNTLQQL-KFYKPYICDNDPKYERLVNAILDFLPKIE-ENLICSKYT 565

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 52.7 bits (127), Expect = 5e-09
 Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 2/74 (2%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAA 229
                LR++FV+  P +      L  +F  FG V  + +  +    A V+       EA 
Sbjct: 3   SGSSGLRSVFVSGFP-RGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAV 61

Query: 230 LKSPDAVMGNRFIK 243
           L      +G   ++
Sbjct: 62  LSQSQHSLGGHRLR 75

>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 = 52.6 bits (127), Expect = 6e-09
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 1/56 (1%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKS 232
             L+V  +   +    AL   F +FG +  I        A++Q+   + A+AA   
Sbjct: 18  TRLWVGGLG-PNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAK 72

>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 Length = 114

 Score = 53.4 bits (128), Expect = 6e-09
 Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 157 STKAQNDHMRNI-RKPSQKALRTLFVNNVPLKSN-RREALLSHFQKFGEVVDIYIPLNSE 214
           S+ A++  +R+   +    A ++L V N  L +   R  LL   +K G V  + +P N  
Sbjct: 5   SSGAKHTLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKP 64

Query: 215 RAFVQFSKREEAEAALKS 232
            +F ++   EE++ A  +
Sbjct: 65  YSFARYRTTEESKRAYVT 82

>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 = 52.6 bits (127), Expect = 6e-09
 Identities = 22/88 (25%), Positives = 48/88 (54%), Gaps = 7/88 (7%)

Query: 171 PSQKALRTLFVNNVPLKSNR---REALLSHFQKFGEVVDIYIPLNSE---RAFVQFSKRE 224
           P  +   T+++NN+  K  +   +++L + F +FG+++DI +  + +   +AFV F +  
Sbjct: 3   PETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVS 62

Query: 225 EAEAALKSPDAVM-GNRFIKLWWANRDS 251
            A  AL+S       ++ +++ +A  DS
Sbjct: 63  SATNALRSMQGFPFYDKPMRIQYAKTDS 90

>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 = 56.5 bits (137), Expect = 6e-09
 Identities = 19/134 (14%), Positives = 37/134 (27%), Gaps = 22/134 (16%)

Query: 123 ETKED-REALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFV 181
             K+    A   L G     + +                          P+    R L V
Sbjct: 145 MKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQ---------------LTPALLHSRCLCV 189

Query: 182 NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKSPD-A 235
           + +P   N  +AL              +    +      A +++   E AE A +  D  
Sbjct: 190 DRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGL 249

Query: 236 VMGNRFIKLWWANR 249
            +G   +++ +   
Sbjct: 250 SLGGSHLRVSFCAP 263

>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 = 55.8 bits (135), Expect = 1e-08
 Identities = 16/104 (15%), Positives = 36/104 (34%), Gaps = 8/104 (7%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQ 219
           R +    Q     L V N+P  S  ++      + FG +   ++  +          F +
Sbjct: 85  RELSVQLQPTDALLCVANLP-PSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAE 143

Query: 220 FSKREEAEAALKSPD-AVMGNRFIKLWWANRDSIPDDGISGVNV 262
           + K++ A  A        +G R + + W +   +    +    +
Sbjct: 144 YMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCL 187

>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 = 45.4 bits (108), Expect = 3e-05
 Identities = 13/88 (14%), Positives = 32/88 (36%), Gaps = 5/88 (5%)

Query: 165 MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKRE 224
               R+   +  R + +  +P      + +      +  +   ++      AFV     E
Sbjct: 13  EHTERQFRNR--RKILIRGLP-GDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGE 68

Query: 225 EAEAALKSPD-AVMGNRFIKLWWANRDS 251
           +AEAA+ +   + +  R + +     D+
Sbjct: 69  QAEAAINAFHQSRLRERELSVQLQPTDA 96

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Length = 240

 Score = 55.9 bits (134), Expect = 6e-09
 Identities = 21/133 (15%), Positives = 42/133 (31%), Gaps = 13/133 (9%)

Query: 128 REALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLK 187
              +P  +   +   R    D   +       A            +K  +TL+V  +   
Sbjct: 90  LHHIPDEEDIGKLALRTEVLDCFGREK----FADYREDMGGIGSFRKKNKTLYVGGIDGA 145

Query: 188 SNRR--------EALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKS-PDAVMG 238
            N +          +   F + G++  I    +    FV+F  +  AE A ++  +  + 
Sbjct: 146 LNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLL 205

Query: 239 NRFIKLWWANRDS 251
               K W   R+ 
Sbjct: 206 LPSDKEWDDRREG 218

>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 Length = 119

 Score = 53.4 bits (128), Expect = 6e-09
 Identities = 19/106 (17%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 153 NMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN 212
           +      +     R+   PS    R + +  +P+     E ++S    FG+V ++ +   
Sbjct: 12  SGLVPRGSHMGDSRSAGVPS----RVIHIRKLPIDVTEGE-VISLGLPFGKVTNLLMLKG 66

Query: 213 SERAFVQFSKREEAEAALK---SPDAVMGNRFIKLWWANRDSIPDD 255
             +AF++ +  E A   +    S   V+  + I + ++N   +  D
Sbjct: 67  KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTD 112

>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 = 52.6 bits (127), Expect = 7e-09
 Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 2/80 (2%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-AV 236
            LFV N+P      E +   F+K+G+  +++I  +    F++   R  AE A    D   
Sbjct: 17  RLFVGNLPP-DITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 75

Query: 237 MGNRFIKLWWANRDSIPDDG 256
           +  + +++ +A   +    G
Sbjct: 76  LRGKQLRVRFACHSASLTSG 95

>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 = 53.3 bits (128), Expect = 8e-09
 Identities = 24/107 (22%), Positives = 47/107 (43%), Gaps = 7/107 (6%)

Query: 155 DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNS 213
             S K+ +   R+  +   +A   +++  +P ++  +  ++  F+K   V D IYI    
Sbjct: 4   GSSGKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKH-VIDFFKKLDIVEDSIYIAYGP 62

Query: 214 E-----RAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSIPDD 255
                   FV+F    + +AAL      MGNRFI++    +  + + 
Sbjct: 63  NGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEK 109

>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 = 54.9 bits (132), Expect = 8e-09
 Identities = 22/130 (16%), Positives = 50/130 (38%), Gaps = 2/130 (1%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKSPD- 234
             L V+N+  +    ++L   F  +G+V  + I  N +  A VQ +   +A+ A+   + 
Sbjct: 4   SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNG 63

Query: 235 AVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTL 294
             +  + I++  +   ++        +  +T     +         +   ++    S TL
Sbjct: 64  HKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATL 123

Query: 295 KGGNIVPAAD 304
              NI P+  
Sbjct: 124 HLSNIPPSVS 133

>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 = 49.9 bits (119), Expect = 4e-07
 Identities = 29/152 (19%), Positives = 51/152 (33%), Gaps = 23/152 (15%)

Query: 119 YLENETKEDRE-ALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALR 177
            ++       + A+  L G    GK I    +  +N+    + Q D        +    R
Sbjct: 45  LVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHR 104

Query: 178 -----------------TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFV 218
                            TL ++N+P   +  E L   F   G VV  +     +R  A +
Sbjct: 105 FKKPGSKNFQNIFPPSATLHLSNIPPSVSE-EDLKVLFSSNGGVVKGFKFFQKDRKMALI 163

Query: 219 QFSKREEAEAALKSPDA--VMGNRFIKLWWAN 248
           Q    EEA  AL       +  N  +++ ++ 
Sbjct: 164 QMGSVEEAVQALIDLHNHDLGENHHLRVSFSK 195

>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 = 53.0 bits (127), Expect = 1e-08
 Identities = 25/121 (20%), Positives = 48/121 (39%), Gaps = 7/121 (5%)

Query: 136 GSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALL 195
           GS         G   + +   S        R            + +  +P    + E ++
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEE-IV 60

Query: 196 SHFQKFGEV-VDIYIPLNSE-----RAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR 249
             F     V   I +P++ E      AFVQF+ +E AE AL      +G+R+I+++ +++
Sbjct: 61  QFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQ 120

Query: 250 D 250
           +
Sbjct: 121 E 121

>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 = 52.4 bits (126), Expect = 1e-08
 Identities = 9/86 (10%), Positives = 31/86 (36%), Gaps = 7/86 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNSER-----AFVQFSKREEAEAAL 230
               + N+P    + + +L   +      + +++ +++       A VQF   ++A  + 
Sbjct: 16  VCAHITNIPFSITKMD-VLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE 74

Query: 231 KSPDAVMGNRFIKLWWANRDSIPDDG 256
           +     +  R   +     + + +  
Sbjct: 75  RLHRKKLNGREAFVHVVTLEDMREIE 100

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 51.8 bits (125), Expect = 1e-08
 Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 8/88 (9%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSK 222
             P    + TL V+N+  ++   ++L   F+K+G V D+YIP        R  AFV+F  
Sbjct: 6   SGPDVDGMITLKVDNLTYRT-SPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64

Query: 223 REEAEAALKSPD-AVMGNRFIKLWWANR 249
           R +A+ A  + D A +  R +++  A  
Sbjct: 65  RRDAQDAEAAMDGAELDGRELRVQVARY 92

>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 = 53.3 bits (129), Expect = 1e-08
 Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 9/90 (10%)

Query: 177 RTLFVNNVPLKSNRREALL-SHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAAL 230
           R L+V N+       E +L  +FQ  G + +I I ++        AFV++ +  +A  AL
Sbjct: 1   RVLYVGNLDKAIT--EDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIAL 58

Query: 231 KSPD-AVMGNRFIKLWWANRDSIPDDGISG 259
           ++ +   + N  +K+ WA +        + 
Sbjct: 59  QTLNGKQIENNIVKINWAFQSQQSSSDDTF 88

>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 = 45.2 bits (108), Expect = 9e-06
 Identities = 16/79 (20%), Positives = 37/79 (46%), Gaps = 8/79 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV ++   +   E L + F+ F   +  ++  + +        FV F+ +++A+ A+ 
Sbjct: 89  NLFVGDLN-VNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 147

Query: 232 SPD-AVMGNRFIKLWWANR 249
           S     +  R +++ WA +
Sbjct: 148 SMQGQDLNGRPLRINWAAK 166

>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 = 51.7 bits (124), Expect = 2e-08
 Identities = 17/88 (19%), Positives = 33/88 (37%), Gaps = 2/88 (2%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
              S ++   +   N+P  +   E +   F +FG +  + +P     A V+F +  EA  
Sbjct: 3   SGSSGRSKTVILAKNLPAGTLAAE-IQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARK 61

Query: 229 ALKSPD-AVMGNRFIKLWWANRDSIPDD 255
           A +    +   +  + L WA        
Sbjct: 62  AFRHLAYSKFHHVPLYLEWAPIGVFGAA 89

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 51.3 bits (123), Expect = 2e-08
 Identities = 11/76 (14%), Positives = 31/76 (40%), Gaps = 6/76 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALK 231
           R++++   P  +   + +    +  G+V++I +     +      FV F   E A+  ++
Sbjct: 12  RSVYIKGFPTDATL-DDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE 70

Query: 232 SPDAVMGNRFIKLWWA 247
           +P        + + + 
Sbjct: 71  TPGQKYKETDLLILFK 86

>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 Length = 101

 Score = 51.4 bits (123), Expect = 2e-08
 Identities = 22/105 (20%), Positives = 45/105 (42%), Gaps = 10/105 (9%)

Query: 157 STKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERA 216
           S+ +  D M     PS    R L +  +P +    E +++    FG+V +I +     +A
Sbjct: 2   SSGSSGDKMDG--APS----RVLHIRKLPGEVTETE-VIALGLPFGKVTNILMLKGKNQA 54

Query: 217 FVQFSKREEAEAALK---SPDAVMGNRFIKLWWANRDSIPDDGIS 258
           F++ +  E A   +    +    + N+ I + ++N   +   G S
Sbjct: 55  FLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKELKTSGPS 99

>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 = 50.9 bits (122), Expect = 3e-08
 Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 7/88 (7%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNSER-----AFVQFSK 222
             P       + +  +P   ++ E ++  F     V + + +P++ +      AFVQF+ 
Sbjct: 8   NSPDTANDGFVRLRGLPFGCSKEE-IVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFAS 66

Query: 223 REEAEAALKSPDAVMGNRFIKLWWANRD 250
           +E AE ALK     +G+R+I+++ ++R 
Sbjct: 67  QEIAEKALKKHKERIGHRYIEIFKSSRA 94

>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 = 54.5 bits (130), Expect = 3e-08
 Identities = 32/164 (19%), Positives = 62/164 (37%), Gaps = 10/164 (6%)

Query: 171 PSQKALRTLFVNNVPLKSNRRE---ALLSHFQKFGEVVDIYIPLNSE---RAFVQFSKRE 224
           P  +   T+++NN+  K  + E   +L + F +FG+++DI +  + +   +AFV F +  
Sbjct: 4   PETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVS 63

Query: 225 EAEAALKS-PDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNK 283
            A  AL+S       ++ +++ +A  DS   D I+ +  +              +  T  
Sbjct: 64  SATNALRSMQGFPFYDKPMRIQYAKTDS---DIIAKMKGTFVERDRKREKRKPKSQETPA 120

Query: 284 VKDNNLQSTTLKGGNIVPAADVSLPAPDHPTVITNSPKPPPPLQ 327
            K              V      +P       I +     PP  
Sbjct: 121 TKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYM 164

>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 = 53.8 bits (129), Expect = 3e-08
 Identities = 23/130 (17%), Positives = 50/130 (38%), Gaps = 2/130 (1%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPD- 234
             L V+N+  +    ++L   F  +G+V  + I  N  E A VQ +   +A+ A+   + 
Sbjct: 35  SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNG 94

Query: 235 AVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTTL 294
             +  + I++  +   ++        +  +T     +         +   ++    S TL
Sbjct: 95  HKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATL 154

Query: 295 KGGNIVPAAD 304
              NI P+  
Sbjct: 155 HLSNIPPSVS 164

>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 = 51.9 bits (124), Expect = 1e-07
 Identities = 29/152 (19%), Positives = 51/152 (33%), Gaps = 23/152 (15%)

Query: 119 YLENETKEDRE-ALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALR 177
            ++       + A+  L G    GK I    +  +N+    + Q D        +    R
Sbjct: 76  LVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHR 135

Query: 178 -----------------TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFV 218
                            TL ++N+P   +  E L   F   G VV  +     +R  A +
Sbjct: 136 FKKPGSKNFQNIFPPSATLHLSNIPPSVSE-EDLKVLFSSNGGVVKGFKFFQKDRKMALI 194

Query: 219 QFSKREEAEAALKSPDA--VMGNRFIKLWWAN 248
           Q    EEA  AL       +  N  +++ ++ 
Sbjct: 195 QMGSVEEAVQALIDLHNHDLGENHHLRVSFSK 226

>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 = 50.2 bits (121), Expect = 3e-08
 Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 7/73 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAAL 230
           R+++V NV   +   E L +HF   G V  + I  +         A+++FS +E    +L
Sbjct: 7   RSIYVGNVDYGATA-EELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65

Query: 231 KSPDAVMGNRFIK 243
              +++   R IK
Sbjct: 66  ALDESLFRGRQIK 78

>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 Length = 110

 Score = 50.8 bits (122), Expect = 4e-08
 Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 6/97 (6%)

Query: 154 MDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS 213
           M    +A N   +N  K        +F+ N+     ++  + + F K+G V    +    
Sbjct: 8   MSLKLQASNVTNKNDPKSIN---SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGY 64

Query: 214 ERAFVQFSKREEAEAALKSPD-AVMGNRFIKLWWANR 249
             AFVQ+S    A AA+   +  V+  + + +  A  
Sbjct: 65  --AFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE 99

>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 = 51.8 bits (124), Expect = 4e-08
 Identities = 20/131 (15%), Positives = 45/131 (34%), Gaps = 7/131 (5%)

Query: 121 ENETKEDREALPSLQGS-YRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTL 179
             +     +            G+   +       +   +   + HM     P       +
Sbjct: 20  AVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMHRDSCPLD---CKV 76

Query: 180 FVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKSPD-AVM 237
           +V N+    N+ E L   F  +G +  +++  N    AFV+F    +A  A++  D   +
Sbjct: 77  YVGNLGNNGNKTE-LERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTL 135

Query: 238 GNRFIKLWWAN 248
               +++  +N
Sbjct: 136 CGCRVRVELSN 146

>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 = 50.0 bits (120), Expect = 4e-08
 Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 7/73 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-----RAFVQFSKREEAEAALK 231
            T+ +   P     +  ++         V I I  N+        FV FS  EE + ALK
Sbjct: 11  HTVKLRGAPFNVTEKN-VMEFLAPLK-PVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK 68

Query: 232 SPDAVMGNRFIKL 244
                MG R+I++
Sbjct: 69  CNREYMGGRYIEV 81

>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 = 50.5 bits (121), Expect = 6e-08
 Identities = 13/86 (15%), Positives = 31/86 (36%), Gaps = 7/86 (8%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-----RAFVQFSKRE 224
            P       + V+ +P  +   + +   F     V  +++  +          V+F   +
Sbjct: 10  LPINPDDLYVSVHGMPFSAMEND-VRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQ 67

Query: 225 EAEAALKSPDAVMGNRFIKLWWANRD 250
           +   ALK    +M  R++++  A   
Sbjct: 68  DTFEALKRNRMLMIQRYVEVSPATER 93

>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 Length = 109

 Score = 50.4 bits (121), Expect = 6e-08
 Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 9/97 (9%)

Query: 168 IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---AFVQFSKRE 224
           IR P+      ++V N+P     ++ +   F K+G + DI +         AFV+F    
Sbjct: 14  IRGPAGNNDCRIYVGNLPPDIRTKD-IEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPR 72

Query: 225 EAEAALKSPD-AVMGNRFIKLWWA----NRDSIPDDG 256
           +AE A+   D        +++ +        S P  G
Sbjct: 73  DAEDAVYGRDGYDYDGYRLRVEFPRSGRGTGSGPSSG 109

>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 = 49.9 bits (120), Expect = 7e-08
 Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 9/87 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV N+   S+  E L   F  +G + +++ P++S        AFV F   E A  A  
Sbjct: 10  RLFVRNLSYTSSE-EDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA 68

Query: 232 SPD-AVMGNRFIKLWWAN-RDSIPDDG 256
             D  V   R + +  +  +      G
Sbjct: 69  EVDGQVFQGRMLHVLPSTIKKEASQSG 95

>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 = 50.1 bits (120), Expect = 8e-08
 Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 6/87 (6%)

Query: 168 IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---AFVQFSKRE 224
           IR P +   R L++ N+P K    E +   F K+G +  I +    E    A+V +    
Sbjct: 1   IRLPPE-VNRILYIRNLPYKITAEE-MYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIF 58

Query: 225 EAEAALKSPDAV-MGNRFIKLWWANRD 250
           +A+ A+       + NR++ + + N +
Sbjct: 59  DAKNAVDHLSGFNVSNRYLVVLYYNAN 85

>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 = 49.6 bits (119), Expect = 8e-08
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 8/81 (9%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLNSER-----AFVQFSKREEAEAALK 231
            + V N+P   +  E +L  F  +  +   + +  N +      A V F  R+EA AA+ 
Sbjct: 17  IIKVQNMPFTVSIDE-ILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 75

Query: 232 SPD-AVMGNRFIKLWWANRDS 251
             +   +G+R +KL   +  S
Sbjct: 76  DLNDRPIGSRKVKLVLGSGPS 96

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 49.9 bits (119), Expect = 8e-08
 Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 15/100 (15%)

Query: 160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSH--FQKFGEVVDIYIPLNSER-- 215
           +      ++R   QK L  +FV  +  +    E L     F KFG++  + I  ++    
Sbjct: 2   SSGSSGASVRVV-QKNL--VFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAG 58

Query: 216 -------AFVQFSKREEAEAALKSPD-AVMGNRFIKLWWA 247
                  A+V + + E+A  A++  +  V+  R +K    
Sbjct: 59  SQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG 98

>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 Length = 129

 Score = 50.5 bits (121), Expect = 8e-08
 Identities = 25/125 (20%), Positives = 46/125 (36%), Gaps = 12/125 (9%)

Query: 136 GSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKAL----RTLFVNNVPLKSNRR 191
           GS         G   + +   S        R  R    +A       L V  + L +  R
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTER 61

Query: 192 EALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKSPD-AVMGNRFIKL 244
           + L   F K+G + D+ I  + +       AFV F   ++A+ A +  +   +  R I++
Sbjct: 62  D-LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 120

Query: 245 WWANR 249
            ++  
Sbjct: 121 DFSIT 125

>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 = 50.1 bits (120), Expect = 8e-08
 Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 7/99 (7%)

Query: 151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP 210
            K    +         +  +  +   R+++V NV   S   + L +HF   G +  I I 
Sbjct: 11  SKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTA-QDLEAHFSSCGSINRITIL 69

Query: 211 LNSER------AFVQFSKREEAEAALKSPDAVMGNRFIK 243
            +         A+++F++R   +AA+   + V   R IK
Sbjct: 70  CDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIK 108

>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 Length = 111

 Score = 49.7 bits (119), Expect = 1e-07
 Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 18/97 (18%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
           +T+F+ N+   S   EAL    Q+FG++  + + L+ +       AF QF  +E A+  L
Sbjct: 16  KTVFIRNLSFDSEE-EALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74

Query: 231 KSPDA-------VMGNRFIKLWWA----NRDSIPDDG 256
            +           +  R +K+  A       S P  G
Sbjct: 75  AAASLEAEGGGLKLDGRQLKVDLAVTRDEAASGPSSG 111

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 49.1 bits (118), Expect = 1e-07
 Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 10/94 (10%)

Query: 165 MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKRE 224
           M NI   S      LF+ N+PLK+  +E L   F  +G ++ I I       F+QF   +
Sbjct: 4   MHNIPPKS-----RLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAF--GFIQFDNPQ 56

Query: 225 EAEAALKSPD--AVMGNRFIKLWWANRDSIPDDG 256
               A++        G + + L  ++ ++ P   
Sbjct: 57  SVRDAIECESQEMNFGKK-LILEVSSSNARPQFD 89

>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 = 48.9 bits (117), Expect = 1e-07
 Identities = 14/73 (19%), Positives = 35/73 (47%), Gaps = 7/73 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-----RAFVQFSKREEAEAALK 231
             + +  +P ++   + + + F      + ++I +  +      A V+F+  E+A AA+ 
Sbjct: 16  HCVHMRGLPYRATEND-IYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMA 73

Query: 232 SPDAVMGNRFIKL 244
              A M +R+++L
Sbjct: 74  KDKANMQHRYVEL 86

>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 = 50.7 bits (122), Expect = 2e-07
 Identities = 19/116 (16%), Positives = 38/116 (32%), Gaps = 21/116 (18%)

Query: 123 ETKED-REALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFV 181
            T++   EA  +L                  + + +   ++                LF+
Sbjct: 55  YTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRK--------------LFI 100

Query: 182 NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKS 232
             +  K      +   F  FG++ +  I    +      AFV F+ R  A+ A+K+
Sbjct: 101 GMIS-KKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA 155

>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 = 48.4 bits (116), Expect = 1e-06
 Identities = 19/96 (19%), Positives = 37/96 (38%), Gaps = 11/96 (11%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL----NSER----AFVQFSKREEAEA 228
             +FV  VP ++   + L   F+++G V +I +      N  +     FV F  R+ A  
Sbjct: 4   IKMFVGQVP-RTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62

Query: 229 ALKSPDA--VMGNRFIKLWWANRDSIPDDGISGVNV 262
           A  +     V+      +     DS  ++ +    +
Sbjct: 63  AQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKL 98

>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 Length = 196

 Score = 50.8 bits (122), Expect = 2e-07
 Identities = 19/83 (22%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQ 219
           ++      + LR LF+  +  ++   E+L SHF+++G + D  +  +      R   FV 
Sbjct: 3   KSESPKEPEQLRKLFIGGLSFETTD-ESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVT 61

Query: 220 FSKREEAEAALKSPDAVMGNRFI 242
           ++  EE +AA+ +    +  R +
Sbjct: 62  YATVEEVDAAMNARPHKVDGRVV 84

>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 Length = 196

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 12/80 (15%), Positives = 29/80 (36%), Gaps = 7/80 (8%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSK 222
           R  +   ++ +FV  +  +      L  +F+++G++  I I  +         AFV F  
Sbjct: 97  RPGAHLTVKKIFVGGIK-EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD 155

Query: 223 REEAEAALKSPDAVMGNRFI 242
            +  +  +      +     
Sbjct: 156 HDSVDKIVIQKYHTVNGHNC 175

>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 Length = 114

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 15/73 (20%), Positives = 28/73 (38%), Gaps = 7/73 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
           RT+F   +  +   R+ L   F   G+V D+ I  +         A+V+F + +    A+
Sbjct: 26  RTVFCMQLAARIRPRD-LEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 84

Query: 231 KSPDAVMGNRFIK 243
                 +    I 
Sbjct: 85  GLTGQRLLGVPII 97

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 13/74 (17%), Positives = 26/74 (35%), Gaps = 8/74 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
           + +    +         L    +K+GEV ++ I L+         A V F+    A+  +
Sbjct: 7   KEVTFARLNDNVRETF-LKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETV 65

Query: 231 KSPD-AVMGNRFIK 243
           K+     +    I 
Sbjct: 66  KNLHLTSVMGNIIH 79

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 48.3 bits (115), Expect = 4e-07
 Identities = 17/91 (18%), Positives = 39/91 (42%), Gaps = 10/91 (10%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD----IYIPLNSE-----RAFVQ 219
           +  S++    + +  +P  +   E +++ F +   +      I      +      AFV 
Sbjct: 16  QFLSKENQVIVRMRGLPFTATAEE-VVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVL 74

Query: 220 FSKREEAEAALKSPDAVMGNRFIKLWWANRD 250
           F+  E A+ AL+    ++G R+I+L+ +   
Sbjct: 75  FACEEYAQNALRKHKDLLGKRYIELFRSTAA 105

>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 = 49.5 bits (119), Expect = 4e-07
 Identities = 14/80 (17%), Positives = 24/80 (30%), Gaps = 6/80 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALK 231
             LF+ N+   +     L     +     D+ +            +V F   E+ E AL+
Sbjct: 14  FNLFIGNLN-PNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE 72

Query: 232 SPDAVMGNRFIKLWWANRDS 251
                +    IKL       
Sbjct: 73  LTGLKVFGNEIKLEKPKGRD 92

>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 = 44.9 bits (107), Expect = 1e-05
 Identities = 17/96 (17%), Positives = 35/96 (36%), Gaps = 14/96 (14%)

Query: 159 KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--- 215
           K +    + +R       RTL   N+       + L   F+   E+    +     +   
Sbjct: 87  KPKGRDSKKVRAA-----RTLLAKNLSFNITE-DELKEVFEDALEIR---LVSQDGKSKG 137

Query: 216 -AFVQFSKREEAEAALKSPD-AVMGNRFIKLWWANR 249
            A+++F    +AE  L+    A +  R + L++   
Sbjct: 138 IAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE 173

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 47.8 bits (114), Expect = 4e-07
 Identities = 10/79 (12%), Positives = 26/79 (32%), Gaps = 4/79 (5%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK---SP 233
             + +  +       + L+   Q+FG +  + +     +A V+F     A  A+      
Sbjct: 22  PVVHIRGLIDGVVEAD-LVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADN 80

Query: 234 DAVMGNRFIKLWWANRDSI 252
              +      + ++    I
Sbjct: 81  QIYIAGHPAFVNYSTSQKI 99

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 47.6 bits (114), Expect = 4e-07
 Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 8/77 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAALK 231
           T+ V N+   +     L   F+ FG +  IY+  +      +  AF+ F +RE+A  A+ 
Sbjct: 17  TIRVTNLSEDTRE-TDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 75

Query: 232 SPD-AVMGNRFIKLWWA 247
                   +  + + WA
Sbjct: 76  GVSGFGYDHLILNVEWA 92

>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 Length = 105

 Score = 47.7 bits (114), Expect = 4e-07
 Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALK 231
           R LFV  +  K    E +L  FQ FG + +  +    +      AFV+FS   EA+AA+ 
Sbjct: 16  RKLFVGMLN-KQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH 74

Query: 232 S 232
           +
Sbjct: 75  A 75

>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 Length = 167

 Score = 49.1 bits (118), Expect = 5e-07
 Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 7/83 (8%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQ 219
           R I +  Q     +FV  +     R +     F ++G ++D  + L+ +        FV 
Sbjct: 77  RAIPRDEQDKTGKIFVGGIG-PDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVT 135

Query: 220 FSKREEAEAALKSPDAVMGNRFI 242
           +   +  +   ++      +R I
Sbjct: 136 YDSADAVDRVCQNKFIDFKDRKI 158

>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 Length = 167

 Score = 47.1 bits (113), Expect = 2e-06
 Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 7/66 (10%)

Query: 174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAE 227
           K    +F+  +   +   + L  +F K+G V D+ I  +      R   F+ F K    +
Sbjct: 1   KESCKMFIGGLNWDTTE-DNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVD 59

Query: 228 AALKSP 233
             +K+ 
Sbjct: 60  EVVKTQ 65

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 48.2 bits (115), Expect = 5e-07
 Identities = 28/126 (22%), Positives = 53/126 (42%), Gaps = 8/126 (6%)

Query: 132 PSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRR 191
            S    +     +  G  +          +         P  + + +L V+N+  ++   
Sbjct: 3   SSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRT-SP 61

Query: 192 EALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAALKSPD-AVMGNRFIKL 244
           + L   F+K+G V D+YIP +      R  AFV+F  + +AE A+ + D AV+  R +++
Sbjct: 62  DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRV 121

Query: 245 WWANRD 250
             A   
Sbjct: 122 QMARYG 127

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 47.2 bits (113), Expect = 5e-07
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 8/81 (9%)

Query: 177 RTLFVNNVPLKSNRREALL-SHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALK 231
           RTL+V N+       E L+   F + G      +           FV+F +  +A AAL 
Sbjct: 16  RTLYVGNLSRDVT--EVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALA 73

Query: 232 SPD-AVMGNRFIKLWWANRDS 251
           + +   +  + +K+ WA   S
Sbjct: 74  AMNGRKILGKEVKVNWATTPS 94

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 47.3 bits (113), Expect = 6e-07
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 5/92 (5%)

Query: 159 KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFV 218
             +  HM + ++        LFV   PL     E L   F  FG + ++ I      AFV
Sbjct: 15  VPRGSHMHHRQEGELSN-TRLFVRPFPLDVQESE-LNEIFGPFGPMKEVKILNGF--AFV 70

Query: 219 QFSKREEAEAALKSPD-AVMGNRFIKLWWANR 249
           +F + E A  A++        N+ +++ ++  
Sbjct: 71  EFEEAESAAKAIEEVHGKSFANQPLEVVYSKL 102

>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 = 46.9 bits (112), Expect = 6e-07
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 8/74 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            + V N+P   +  E +L  F  +  +        +E+      A V F  R+EA AA+ 
Sbjct: 17  VIKVQNMPFTVSIDE-ILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 75

Query: 232 SPD-AVMGNRFIKL 244
             +   +G+R +KL
Sbjct: 76  DLNDRPIGSRKVKL 89

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 46.7 bits (111), Expect = 7e-07
 Identities = 17/82 (20%), Positives = 36/82 (43%), Gaps = 5/82 (6%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD---IYIPLNSERAFVQFSKREEAE 227
           P ++ +R L + N+P    + E L S   ++G V     +     +    V +S +++A 
Sbjct: 10  PKRQRIRKLQIRNIP-PHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQAR 68

Query: 228 AALKSPD-AVMGNRFIKLWWAN 248
            AL   +   + N  +K+ +  
Sbjct: 69  QALDKLNGFQLENFTLKVAYIP 90

>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 = 50.1 bits (120), Expect = 8e-07
 Identities = 19/84 (22%), Positives = 40/84 (47%), Gaps = 4/84 (4%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
           +  +Q+    LFV N+P      E     F+++GE  +++I  +    F++   R  AE 
Sbjct: 17  KTYTQRC--RLFVGNLPTDITE-EDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEI 73

Query: 229 ALKSPD-AVMGNRFIKLWWANRDS 251
           A    D  ++ +R +++ +A   +
Sbjct: 74  AKAELDGTILKSRPLRIRFATHGA 97

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 46.5 bits (111), Expect = 9e-07
 Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 3/72 (4%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKSPD-AV 236
           ++V N+   + + E L   F  +G +  ++I  N    AFV+F    +AE A++  D  V
Sbjct: 3   VYVGNLGTGAGKGE-LERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61

Query: 237 MGNRFIKLWWAN 248
           +    +++  + 
Sbjct: 62  ICGSRVRVELST 73

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 3/63 (4%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
              S KA   L V N+      +E L + F+++G V++  I  +   AFV   + E+A  
Sbjct: 3   SGSSGKASTKLHVGNISPTCTNQE-LRAKFEEYGPVIECDIVKDY--AFVHMERAEDAVE 59

Query: 229 ALK 231
           A++
Sbjct: 60  AIR 62

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Length = 81

 Score = 45.8 bits (109), Expect = 1e-06
 Identities = 14/64 (21%), Positives = 28/64 (43%), Gaps = 9/64 (14%)

Query: 178 TLFVNNVPLKSNRR-----EALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEA 228
            + V+NVP     R       +   F KFG++ + + P    +     F++++    A  
Sbjct: 3   VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVD 62

Query: 229 ALKS 232
           A+K+
Sbjct: 63  AVKN 66

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 46.3 bits (110), Expect = 1e-06
 Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 11/67 (16%)

Query: 177 RTLFVNNVPLKSNRR-----EALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREE 225
           + + VN  P+  + +     +AL S F K G+VV++  P++          FV+     +
Sbjct: 7   QYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMND 66

Query: 226 AEAALKS 232
           A+  +KS
Sbjct: 67  AKKIIKS 73

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 45.8 bits (109), Expect = 2e-06
 Identities = 12/64 (18%), Positives = 28/64 (43%), Gaps = 9/64 (14%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFG--EVVDIYIPLNSE----R--AFVQFSKREEAEA 228
            T+ + N+   +   +++++    +    V +I +  + +    R  AFVQ S   +A  
Sbjct: 10  DTIILRNIAPHTVV-DSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQ 68

Query: 229 ALKS 232
            L+ 
Sbjct: 69  LLQI 72

>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 = 45.7 bits (109), Expect = 2e-06
 Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-A 235
           + L+V N+ L S   E +   F          +    + AFV FS RE+A  A+K+ +  
Sbjct: 16  KILYVRNLML-STSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGK 74

Query: 236 VMGNRFIKLWWA 247
           V+    I++  A
Sbjct: 75  VLDGSPIEVTLA 86

>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 = 48.4 bits (116), Expect = 2e-06
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 165 MRNIRKPSQKALR--TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFV 218
           M + R PS +      +F+ N+  KS   +AL   F  FG ++   +  +        FV
Sbjct: 90  MWSQRDPSLRKSGVGNIFIKNLD-KSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFV 148

Query: 219 QFSKREEAEAALKSPD-AVMGNRFIKLWWANR 249
            F  +E AE A++  +  ++ +R + +     
Sbjct: 149 HFETQEAAERAIEKMNGMLLNDRKVFVGRFKS 180

>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 = 48.0 bits (115), Expect = 2e-06
 Identities = 21/91 (23%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 177 RTLFVNNVPLKSNRREALL-SHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAA 229
            +L+V +  L  +  EA+L   F   G ++ I +  +         A+V F +  +AE A
Sbjct: 16  ASLYVGD--LHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73

Query: 230 LKSPD-AVMGNRFIKLWWANRDSIPDDGISG 259
           L + +  V+  + +++ W+ RD        G
Sbjct: 74  LDTMNFDVIKGKPVRIMWSQRDPSLRKSGVG 104

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Length = 105

 Score = 45.9 bits (109), Expect = 2e-06
 Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 9/65 (13%)

Query: 177 RTLFVNNVPLKSNRR-----EALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAE 227
             + V+NVP     R       +   F KFG++ + + P    +     F++++    A 
Sbjct: 16  SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAV 75

Query: 228 AALKS 232
            A+K+
Sbjct: 76  DAVKN 80

>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 Length = 103

 Score = 45.7 bits (109), Expect = 2e-06
 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 10/89 (11%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALKS 232
           + L V+N+P    R   L   F +FG+++D+ I  N        FV F    +A+ A + 
Sbjct: 16  KRLHVSNIPF-RFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREK 74

Query: 233 PD-AVMGNRFIKLWWAN----RDSIPDDG 256
               V+  R I++  A      +S P  G
Sbjct: 75  LHGTVVEGRKIEVNNATARVMTNSGPSSG 103

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 48.1 bits (115), Expect = 2e-06
 Identities = 22/139 (15%), Positives = 55/139 (39%), Gaps = 16/139 (11%)

Query: 119 YLENETKEDRE-ALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALR 177
           ++E E  E  + AL  +      G+ I  G             Q   + +      +A  
Sbjct: 74  FVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIG-------QAQPIIDQLAEEARAFN 126

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            ++V +V    +  + + S F+ FG++    +  +          F+++ K + ++ A+ 
Sbjct: 127 RIYVASVHQDLSD-DDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185

Query: 232 SPD-AVMGNRFIKLWWANR 249
           S +   +G +++++  A  
Sbjct: 186 SMNLFDLGGQYLRVGKAVT 204

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 8/90 (8%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSK 222
           R+ +   +  ++V ++       + +   F  FG +  I +  +S        AFV++  
Sbjct: 21  RQGALAIMSRVYVGSIY-YELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEV 79

Query: 223 REEAEAALKSPD-AVMGNRFIKLWWANRDS 251
            E A+ AL+  +  ++G R IK+   +   
Sbjct: 80  PEAAQLALEQMNSVMLGGRNIKVGRPSNIG 109

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 46.8 bits (111), Expect = 3e-06
 Identities = 28/134 (20%), Positives = 55/134 (41%), Gaps = 13/134 (9%)

Query: 123 ETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVN 182
           +     +                  DA +          + H  ++   +     +L V+
Sbjct: 22  DAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMDVEGMT-----SLKVD 76

Query: 183 NVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAALKSPD-A 235
           N+  +++  + L   F+K+G V D+YIP +      R  AFV+F  + +AE A+ + D A
Sbjct: 77  NLTYRTSP-DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 135

Query: 236 VMGNRFIKLWWANR 249
           V+  R +++  A  
Sbjct: 136 VLDGRELRVQMARY 149

>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 Length = 205

 Score = 47.4 bits (112), Expect = 3e-06
 Identities = 16/119 (13%), Positives = 40/119 (33%), Gaps = 2/119 (1%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-RAFVQFSKREEAEAALKSPD- 234
             L V  +       + + + F  +G V  +    +    A V+ +     + A+   + 
Sbjct: 5   PVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNN 64

Query: 235 AVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHTSVTNKVKDNNLQSTT 293
             M  + + +  + + +I      G+     S+   + S     S   +   N +Q  +
Sbjct: 65  NFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPS 123

>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 Length = 205

 Score = 44.7 bits (105), Expect = 2e-05
 Identities = 18/150 (12%), Positives = 39/150 (26%), Gaps = 27/150 (18%)

Query: 109 KIDATLNSLDYLENETKED-REALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRN 167
           K   +      +E         A+  L  ++  G+++    + Q  + P      +    
Sbjct: 36  KFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSC 95

Query: 168 IRKPS-------------------QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIY 208
             K                     Q     L   N PL+    E       + G      
Sbjct: 96  SYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTE-ENFFEICDELGVKRPTS 154

Query: 209 IPLNSER------AFVQFSKREEAEAALKS 232
           + + S +        +++  + +A   L  
Sbjct: 155 VKVFSGKSERSSSGLLEWDSKSDALETLGF 184

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 46.3 bits (110), Expect = 3e-06
 Identities = 26/86 (30%), Positives = 44/86 (51%), Gaps = 8/86 (9%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSK 222
              S    R L+V  +  + +  + L + F  FG++ DI IPL+ E    R  AFV+F  
Sbjct: 56  SGGSATTKRVLYVGGLAEEVDD-KVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFEL 114

Query: 223 REEAEAALKSPD-AVMGNRFIKLWWA 247
            E+A AA+ + + + +  R I++  A
Sbjct: 115 AEDAAAAIDNMNESELFGRTIRVNLA 140

>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 = 47.3 bits (113), Expect = 3e-06
 Identities = 17/139 (12%), Positives = 45/139 (32%), Gaps = 10/139 (7%)

Query: 119 YLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNM--DPSTKAQNDHMRNIRKPSQKAL 176
           +LE  + ++     +  G   +G+ +              S          +      + 
Sbjct: 55  FLEFRSVDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSA 114

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             LF+  +P   N  + +      FG +    +  +S        AF ++      + A+
Sbjct: 115 HKLFIGGLPNYLND-DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173

Query: 231 KSPD-AVMGNRFIKLWWAN 248
              +   +G++ + +  A+
Sbjct: 174 AGLNGMQLGDKKLLVQRAS 192

>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 = 44.3 bits (105), Expect = 3e-05
 Identities = 19/113 (16%), Positives = 39/113 (34%), Gaps = 12/113 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP---------LNSER--AFVQFSKREE 225
           R L+V N+P      EA++  F     +  +            +N ++  AF++F   +E
Sbjct: 5   RRLYVGNIPFGITE-EAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63

Query: 226 AEAALKSPDAVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMTAASFPAHT 278
              A+     +   + +K+   +            +V +     T     AH 
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHK 116

>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 Length = 165

 Score = 46.4 bits (110), Expect = 4e-06
 Identities = 21/139 (15%), Positives = 62/139 (44%), Gaps = 10/139 (7%)

Query: 118 DYLENETKEDREALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKAL- 176
           ++  +E  +        +  +R+G+        ++ +    + +N+    +    Q+++ 
Sbjct: 12  EFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVE 71

Query: 177 -RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAA 229
              LFV ++  ++   + +   F  +GE+ +I++ L+         A V++   ++A AA
Sbjct: 72  GWILFVTSIHEEAQE-DEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130

Query: 230 LKSPD-AVMGNRFIKLWWA 247
            ++ + A +  + I++ W 
Sbjct: 131 KEALNGAEIMGQTIQVDWC 149

>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 = 44.9 bits (107), Expect = 4e-06
 Identities = 18/99 (18%), Positives = 39/99 (39%), Gaps = 13/99 (13%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFS 221
            +  +    T F+ N+P      E++   F+    +  + +P             + +F 
Sbjct: 8   SRLPKSPPYTAFLGNLPYDVTE-ESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFE 65

Query: 222 KREEAEAALKSPDAVMGNRFIKLWWA----NRDSIPDDG 256
             +   +AL   +  +GN+ I++  A    ++DS P  G
Sbjct: 66  DLDSLLSALSLNEESLGNKRIRVDVADQAQDKDSGPSSG 104

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 44.5 bits (106), Expect = 4e-06
 Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 9/79 (11%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFSKREEAEAA 229
            T F+ N+P      E++   F+    +  + +P             + +F   +   +A
Sbjct: 20  YTAFLGNLPYDVTE-ESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSA 77

Query: 230 LKSPDAVMGNRFIKLWWAN 248
           L   +  +GNR I++  A+
Sbjct: 78  LSLNEESLGNRRIRVDVAD 96

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 44.1 bits (105), Expect = 4e-06
 Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 7/61 (11%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAAL 230
           R L+V  +  + +  + L + F  FG++ DI IPL+ E    R  AFV+F   E+A AA+
Sbjct: 8   RVLYVGGLAEEVDD-KVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 66

Query: 231 K 231
            
Sbjct: 67  D 67

>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 Length = 106

 Score = 44.6 bits (106), Expect = 5e-06
 Identities = 13/60 (21%), Positives = 30/60 (50%), Gaps = 7/60 (11%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           LF+  +P ++   + L   F++FG++ ++ +  +         AF+ + +RE A  A  +
Sbjct: 16  LFIGQIP-RNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSA 74

>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 = 45.3 bits (107), Expect = 5e-06
 Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 7/87 (8%)

Query: 171 PSQKALRTLFVNNVPLKSNRRE--ALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKR 223
           P       + +  +P   +  +    LS       V  ++     E      AFV+    
Sbjct: 12  PEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESE 71

Query: 224 EEAEAALKSPDAVMGNRFIKLWWANRD 250
           ++ + ALK     MG+R+I+++ ++R 
Sbjct: 72  DDVKLALKKDRESMGHRYIEVFKSHRT 98

>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 = 5e-06
 Identities = 17/82 (20%), Positives = 35/82 (42%), Gaps = 8/82 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             L VN +P        L + F+  G +    I  + +       AFV F+   +++ A+
Sbjct: 4   TNLIVNYLPQDMTD-RELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62

Query: 231 KSPDAV-MGNRFIKLWWANRDS 251
           K  + + + N+ +K+ +A    
Sbjct: 63  KVLNGITVRNKRLKVSYARPGG 84

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 9/74 (12%)

Query: 167 NIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFV 218
           +  +P  ++++   L+V N+P      + L + F K+G +V   I  +         AFV
Sbjct: 78  SYARPGGESIKDTNLYVTNLPRTITD-DQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFV 136

Query: 219 QFSKREEAEAALKS 232
           +++KREEA+ A+ +
Sbjct: 137 RYNKREEAQEAISA 150

>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 = 46.1 bits (110), Expect = 5e-06
 Identities = 15/91 (16%), Positives = 33/91 (36%), Gaps = 12/91 (13%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP---------LNSER--AFVQFSKREE 225
           R L+V N+P      EA++  F     +  +            +N ++  AF++F   +E
Sbjct: 5   RRLYVGNIP-FGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63

Query: 226 AEAALKSPDAVMGNRFIKLWWANRDSIPDDG 256
              A+     +   + +K+   +        
Sbjct: 64  TTQAMAFDGIIFQGQSLKIRRPHDYQPLPGA 94

>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 = 46.1 bits (110), Expect = 5e-06
 Identities = 12/91 (13%), Positives = 30/91 (32%), Gaps = 8/91 (8%)

Query: 165 MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFV 218
            R            LF+  +P      + +      FG +    +  +S        AF 
Sbjct: 83  RRPHDYQPLPGAHKLFIGGLP-NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFC 141

Query: 219 QFSKREEAEAALKSPD-AVMGNRFIKLWWAN 248
           ++      + A+   +   +G++ + +  A+
Sbjct: 142 EYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 172

>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} Length = 89

 Score = 44.1 bits (105), Expect = 5e-06
 Identities = 21/78 (26%), Positives = 31/78 (39%), Gaps = 5/78 (6%)

Query: 165 MRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSK 222
           MR            +FV          E L   F ++GEVVD++IP    R  AFV F+ 
Sbjct: 1   MRGSHHHHHHG-SKVFVGRCTEDMTA-EELQQFFCQYGEVVDVFIPKPF-RAFAFVTFAD 57

Query: 223 REEAEAALKSPDAVMGNR 240
            + A++       + G  
Sbjct: 58  DKVAQSLCGEDLIIKGIS 75

>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 = 43.7 bits (104), Expect = 6e-06
 Identities = 13/61 (21%), Positives = 30/61 (49%), Gaps = 8/61 (13%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFSKREEAEAAL 230
            + +  +  ++  ++ ++  F  +G++  I +P+           A+V+F   +EAE AL
Sbjct: 6   KVHIGRLT-RNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64

Query: 231 K 231
           K
Sbjct: 65  K 65

>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} Length = 116

 Score = 44.6 bits (106), Expect = 7e-06
 Identities = 19/99 (19%), Positives = 40/99 (40%), Gaps = 7/99 (7%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALKS 232
            LF+  +  ++N  + L + F K G + ++ +  +        AF+ F    +A+ A K 
Sbjct: 9   KLFIGGLNRETNE-KMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKD 67

Query: 233 PD-AVMGNRFIKLWWANRDSIPDDGISGVNVSMTSHGMT 270
            +   +  + IK+  A + S    G      S  +   +
Sbjct: 68  MNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPS 106

>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 Length = 88

 Score = 43.7 bits (104), Expect = 7e-06
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 4/64 (6%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAEAALKSPDAV 236
           +FV          + L   F ++G+V+D++IP    R  AFV F+  + A++       +
Sbjct: 8   VFVGRCTGDMTE-DELREFFSQYGDVMDVFIPKPF-RAFAFVTFADDQIAQSLCGEDLII 65

Query: 237 MGNR 240
            G  
Sbjct: 66  KGIS 69

>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 = 45.0 bits (106), Expect = 8e-06
 Identities = 17/107 (15%), Positives = 37/107 (34%), Gaps = 7/107 (6%)

Query: 151 QKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRRE--ALLSHFQKFGEVVDIY 208
                 +   Q      +  P       + +  +P   +  +    LS          ++
Sbjct: 19  SHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVH 78

Query: 209 IPLNSER-----AFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRD 250
                E      AFV+    ++ + ALK     MG+R+I+++ ++R 
Sbjct: 79  FIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRT 125

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 43.7 bits (104), Expect = 8e-06
 Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 8/80 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             L V  + L +     L   F K+G + D+ I  + +       AFV F   ++A+ A 
Sbjct: 16  CCLGVFGLSLYTTE-RDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74

Query: 231 KSPD-AVMGNRFIKLWWANR 249
           +  +   +  R I++   + 
Sbjct: 75  ERANGMELDGRRIRVSGPSS 94

>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 Length = 87

 Score = 43.3 bits (103), Expect = 9e-06
 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 7/80 (8%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSK 222
              +++    +FV  +   +++ + L  +F KFGEVVD  I ++      R   F+ F  
Sbjct: 4   ASKNEEDAGKMFVGGLSWDTSK-KDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKD 62

Query: 223 REEAEAALKSPDAVMGNRFI 242
               E  L   +  +  R I
Sbjct: 63  AASVEKVLDQKEHRLDGRVI 82

>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 = 44.2 bits (105), Expect = 9e-06
 Identities = 18/89 (20%), Positives = 34/89 (38%), Gaps = 8/89 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
           + L++ N+  +   R+ L+S F +F E     I            AF+ F  +E A  AL
Sbjct: 26  KVLYLKNLSPRVTERD-LVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL 84

Query: 231 KSPD-AVMGNRFIKLWWANRDSIPDDGIS 258
              +   +  + + + +         G S
Sbjct: 85  HLVNGYKLYGKILVIEFGKNKKQRSSGPS 113

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 43.8 bits (104), Expect = 9e-06
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SER----AFVQFSKREEAEAALK 231
             LF++ +P    + E L    +  G V D+ +  N + +    A+V++    +A  A+ 
Sbjct: 18  HKLFISGLPFSCTK-EELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVM 76

Query: 232 SPD-AVMGNRFIKLWWAN 248
             D   +    IK+  +N
Sbjct: 77  KMDGMTIKENIIKVAISN 94

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 8/77 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAALK 231
            LFV  V  ++   E +   F ++GE+ +I++ L+           V++   +EA+AA++
Sbjct: 25  ILFVTGVHEEATE-EDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 83

Query: 232 SPD-AVMGNRFIKLWWA 247
             +   +  + I + W 
Sbjct: 84  GLNGQDLMGQPISVDWC 100

>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 Length = 112

 Score = 44.2 bits (104), Expect = 1e-05
 Identities = 18/103 (17%), Positives = 39/103 (37%), Gaps = 3/103 (2%)

Query: 157 STKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERA 216
           S K             Q+  R + ++N+P       A+L   + +G++ +  +     +A
Sbjct: 6   SGKKPEGKPDQKFDQKQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQA 65

Query: 217 FVQFSKREEAEAAL---KSPDAVMGNRFIKLWWANRDSIPDDG 256
           F++   RE+A A +            R +K+  + +      G
Sbjct: 66  FIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKYKKLVSG 108

>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* Length = 126

 Score = 44.3 bits (105), Expect = 1e-05
 Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 8/77 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV  V  ++   E +   F ++GE+ +I++ L+           V++   +EA+AA++
Sbjct: 24  ILFVTGVHEEATE-EDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAME 82

Query: 232 SPD-AVMGNRFIKLWWA 247
             +   +  + I + W 
Sbjct: 83  GLNGQDLMGQPISVDWC 99

>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 = 44.9 bits (107), Expect = 1e-05
 Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 12/99 (12%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            L VN +P    + E   S F   GE+    +  +          FV +   ++AE A+ 
Sbjct: 4   NLIVNYLPQNMTQ-EEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62

Query: 232 SPDAV-MGNRFIKLWWANRDSIPDDG----ISGVNVSMT 265
           + + + +  + IK+ +A   S         +SG+  +MT
Sbjct: 63  TLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMT 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 = 43.7 bits (104), Expect = 3e-05
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 9/74 (12%)

Query: 167 NIRKPSQKALRT--LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFV 218
           +  +PS  ++R   L+V+ +P K+  ++ L   F ++G ++   I ++          F+
Sbjct: 77  SYARPSSASIRDANLYVSGLP-KTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI 135

Query: 219 QFSKREEAEAALKS 232
           +F KR EAE A+K 
Sbjct: 136 RFDKRIEAEEAIKG 149

>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 Length = 105

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 19/82 (23%), Positives = 38/82 (46%), Gaps = 8/82 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAAL 230
            T++V  +  K +    L   F + G VV+ ++P +          FV+F   E+A+ A+
Sbjct: 16  ATVYVGGLDEKVSE-PLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74

Query: 231 KSPD-AVMGNRFIKLWWANRDS 251
           K  D   +  + I++  A+  +
Sbjct: 75  KIMDMIKLYGKPIRVNKASAHN 96

>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} Length = 87

 Score = 42.9 bits (102), Expect = 1e-05
 Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 7/66 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAALKSPD-AVMGNRFIKL 244
            A+ + F  FG + D  +  +    +     FV F  + +AE A++      +G R I+ 
Sbjct: 21  AAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRT 80

Query: 245 WWANRD 250
            WA R 
Sbjct: 81  NWATRK 86

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 20/91 (21%), Positives = 40/91 (43%), Gaps = 9/91 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAAL 230
             LFV  +   +N  ++L   F K+G++ ++ +  + E  R     FV F   ++A+ A+
Sbjct: 13  GKLFVGGLSFDTNE-QSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71

Query: 231 KSPD-AVMGNRFIKLWWAN-RDSIPDDGISG 259
            + +   +  R I++  A           SG
Sbjct: 72  MAMNGKSVDGRQIRVDQAGKSSDNRSGPSSG 102

>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* Length = 345

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 170 KPSQKALRTLFVNNVPLKSN-RREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
           +    A ++L V N  L +   R  LL   +K G V  + +P N   +F ++   EE++ 
Sbjct: 12  ETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKR 71

Query: 229 ALKS 232
           A  +
Sbjct: 72  AYVT 75

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 6/57 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAALKSPDAVMGNRFI 242
           E L  +F +FGEV +  +  +      R   FV F  +   +  L      + ++ I
Sbjct: 15  EGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTI 71

>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 Length = 193

 Score = 44.8 bits (105), Expect = 2e-05
 Identities = 11/93 (11%), Positives = 34/93 (36%), Gaps = 6/93 (6%)

Query: 161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----- 215
           +          +    R++++   P  +   + +    +  G+V++I +     +     
Sbjct: 94  KPLPEVTDEYKNDVKNRSVYIKGFPTDATL-DDIKEWLEDKGQVLNIQMRRTLHKAFKGS 152

Query: 216 AFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN 248
            FV F   E A+  +++P        + + + +
Sbjct: 153 IFVVFDSIESAKKFVETPGQKYKETDLLILFKD 185

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 43.1 bits (102), Expect = 2e-05
 Identities = 21/79 (26%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 157 STKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER- 215
               +  HM    K   K    L V+N+P    R   L   F +FG+++D+ I  N    
Sbjct: 13  GLVPRGSHMNTENKSQPK---RLHVSNIPF-RFRDPDLRQMFGQFGKILDVEIIFNERGS 68

Query: 216 ---AFVQFSKREEAEAALK 231
               FV F    +A+ A +
Sbjct: 69  KGFGFVTFENSADADRARE 87

>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 Length = 103

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALK 231
           + LFV N+   +   E L   F +FG++  +    +   AF+ F +R+ A  A++
Sbjct: 12  KVLFVRNLAN-TVTEEILEKAFSQFGKLERVKKLKDY--AFIHFDERDGAVKAME 63

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 28/90 (31%), Positives = 47/90 (52%), Gaps = 8/90 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAAL 230
           R L+V  +  + +  + L + F  FG++ DI IPL+ E    R  AFV+F   E+A AA+
Sbjct: 13  RVLYVGGLAEEVDD-KVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 71

Query: 231 KSPD-AVMGNRFIKLWWANRDSIPDDGISG 259
            + + + +  R I++  A    I + G S 
Sbjct: 72  DNMNESELFGRTIRVNLAKPMRIKESGPSS 101

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 6/76 (7%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALKSPD 234
           +F+ N+  KS   +AL   F  FG ++   +  +        FV F  +E AE A++  +
Sbjct: 8   IFIKNLD-KSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 66

Query: 235 -AVMGNRFIKLWWANR 249
             ++ +R + +     
Sbjct: 67  GMLLNDRKVFVGRFKS 82

>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 = 42.9 bits (101), Expect = 2e-05
 Identities = 12/88 (13%), Positives = 32/88 (36%), Gaps = 7/88 (7%)

Query: 170 KPSQKALRTLFVNNVPLKSNRRE--ALLSHFQKFGEVVDIYIPLNSER-----AFVQFSK 222
           +     +  +    +P      +     S  +       I+  LN +      A ++   
Sbjct: 5   EEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMES 64

Query: 223 REEAEAALKSPDAVMGNRFIKLWWANRD 250
            ++ + AL+     MG R+++++  N +
Sbjct: 65  EQDVQKALEKHRMYMGQRYVEVYEINNE 92

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 16/77 (20%), Positives = 39/77 (50%), Gaps = 8/77 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            LFV ++  ++   + +   F  +GE+ +I++ L+         A V++   ++A AA +
Sbjct: 28  ILFVTSIHEEAQE-DEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 86

Query: 232 SPD-AVMGNRFIKLWWA 247
           + + A +  + I++ W 
Sbjct: 87  ALNGAEIMGQTIQVDWC 103

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 41.8 bits (99), Expect = 4e-05
 Identities = 18/78 (23%), Positives = 30/78 (38%), Gaps = 7/78 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-----AFVQFSKREEAEAALK 231
           RT+FV N+  +    E L   F + G +  + I  + E       FV F   E    A+ 
Sbjct: 17  RTVFVGNLEARVRE-EILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIA 75

Query: 232 SPDAVM-GNRFIKLWWAN 248
             + +    R I +   +
Sbjct: 76  LLNGIRLYGRPINVSGPS 93

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 6/85 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALKS 232
             +FV N+P      + L   F + G V+   I + + +      V+F   E AE A + 
Sbjct: 9   CQIFVRNLP-FDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRM 67

Query: 233 PD-AVMGNRFIKLWWANRDSIPDDG 256
            +   +  R I +      S P  G
Sbjct: 68  MNGMKLSGREIDVRIDRNASGPSSG 92

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 41.9 bits (99), Expect = 5e-05
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 6/57 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKREEAEAALKSPDAVMGNRFI 242
           E L  +F +FGEV +  +  +      R   FV F  +   +  L      + ++ I
Sbjct: 40  EGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTI 96

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 8/74 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAAL 230
            T++V+N+P        L   F K+G+VV + I  + +  +    AF+ F  ++ A+   
Sbjct: 17  STVYVSNLPFSLTN-NDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75

Query: 231 KSPD-AVMGNRFIK 243
           ++ +   +  R IK
Sbjct: 76  RAINNKQLFGRVIK 89

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 41.5 bits (98), Expect = 5e-05
 Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAEAALKSPD 234
           +TL ++N+   +   E L   F+K   +          +  AF++F+  E+A+ AL S +
Sbjct: 16  KTLVLSNLSYSATE-ETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74

Query: 235 -AVMGNRFIKLWWAN----RDSIPDDG 256
              +  R I+L         +S P  G
Sbjct: 75  KREIEGRAIRLELQGPRGSPNSGPSSG 101

>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 = 41.2 bits (97), Expect = 6e-05
 Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 3/83 (3%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-A 235
             + V N+P  SN +E +    + +  +   Y+  N   AFV     E+A+ A++     
Sbjct: 6   SGILVKNLPQDSNCQE-VHDLLKDYD-LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQY 63

Query: 236 VMGNRFIKLWWANRDSIPDDGIS 258
               + + +     D++   G S
Sbjct: 64  SFRGKDLIVQLQPTDALLCSGPS 86

>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 = 41.1 bits (97), Expect = 6e-05
 Identities = 13/85 (15%), Positives = 32/85 (37%), Gaps = 3/85 (3%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-- 234
             L++ N+       + L   F      +   + L S  AFV +  +  A  A+++    
Sbjct: 9   NKLYIGNLSPAVTADD-LRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGK 67

Query: 235 AVMGNRFIKLWWANRDSIPDDGISG 259
             +  + +++ ++    +   G S 
Sbjct: 68  VELHGKIMEVDYSVSKKLRSSGPSS 92

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 40.7 bits (96), Expect = 9e-05
 Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 7/64 (10%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAE 227
             S      +FV NV      +E L S F++ G V++  +     +  AFV   K  +A+
Sbjct: 3   SGSSGNTWKIFVGNVSAACTSQE-LRSLFERRGRVIECDVV----KDYAFVHMEKEADAK 57

Query: 228 AALK 231
           AA+ 
Sbjct: 58  AAIA 61

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 21/92 (22%), Positives = 36/92 (39%), Gaps = 11/92 (11%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---------AFVQFSKREEAEA 228
            LF+ N+   +   E L   F K G +    I     +          FV++ K E+A+ 
Sbjct: 7   GLFIKNLNFSTTE-ETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQK 65

Query: 229 ALKSPD-AVMGNRFIKLWWANRDSIPDDGISG 259
           ALK      +    +++  + R + P  G S 
Sbjct: 66  ALKQLQGHTVDGHKLEVRISERATKPASGPSS 97

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 39.8 bits (94), Expect = 1e-04
 Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 6/57 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPL--NSER----AFVQFSKREEAEAALKSPDAVMGNRFI 242
           E +  +F++FG+V D  +     + R     FV F   +  E   +     + N+ +
Sbjct: 14  EDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMV 70

>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 Length = 75

 Score = 39.8 bits (94), Expect = 1e-04
 Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKSPDAVMGNRFI 242
           E +  +F  FGEV  I +P++++        F+ F + E  +  ++     +G    
Sbjct: 14  EKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKC 70

>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 = 40.8 bits (96), Expect = 1e-04
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 6/53 (11%)

Query: 191 REALLSHFQKFGEVVDIYIPLNSE--RAFVQFSKREEAEAALKSPDAVMGNRF 241
           ++ ++    K G V+ IY+  NS     +V+      A AA+ +    +  R+
Sbjct: 31  KDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNA----LHGRW 79

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 40.3 bits (95), Expect = 1e-04
 Identities = 17/89 (19%), Positives = 44/89 (49%), Gaps = 8/89 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAAL 230
           R +++ ++P      E +L      G V+++ +  + +  R    AF++F   E + +A+
Sbjct: 3   RVVYLGSIPYDQTE-EQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAV 61

Query: 231 KSPD-AVMGNRFIKLWWANRDSIPDDGIS 258
           ++ +   +G+RF+K  +++   I    + 
Sbjct: 62  RNLNGYQLGSRFLKCGYSSNSDISGVSLE 90

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 17/83 (20%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQ 219
              +K  ++  R LF+  +  ++   E+L ++++++G++ D  +  +      R   FV 
Sbjct: 17  LERKKREKEQFRKLFIGGLSFETTE-ESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVT 75

Query: 220 FSKREEAEAALKSPDAVMGNRFI 242
           FS   E +AA+ +    +  R +
Sbjct: 76  FSSMAEVDAAMAARPHSIDGRVV 98

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 21/83 (25%), Positives = 32/83 (38%), Gaps = 7/83 (8%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQ 219
             +       +  LFV  +   + + E L S+F ++GEVVD  I  +      R   FV+
Sbjct: 6   SGMNNSGADEIGKLFVGGLDWSTTQ-ETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVK 64

Query: 220 FSKREEAEAALKSPDAVMGNRFI 242
           F         L S    +  R I
Sbjct: 65  FKDPNCVGTVLASRPHTLDGRNI 87

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 3/74 (4%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-RAFVQFSKREEAEAALKSPD- 234
             ++V N+P +  R   L    ++ G V           RAF+ +     A+ A+     
Sbjct: 20  ADVYVGNLP-RDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCLQG 78

Query: 235 AVMGNRFIKLWWAN 248
             +G   +++  A 
Sbjct: 79  LRLGTDTLRVALAR 92

>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 Length = 102

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 16/83 (19%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAA 229
           K   +  R + + +     N R  LL   + FG + +  I      AF++ +  E+A+AA
Sbjct: 9   KGRVETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAA 68

Query: 230 LK---SPDAVMGNRFIKLWWANR 249
           +    +  A++  + +++  + +
Sbjct: 69  VDYYTTTPALVFGKPVRVHLSQK 91

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 4/65 (6%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAE 227
               +A RTL   N+       + L   F+   E+  +     S +  A+++F    +AE
Sbjct: 10  SKKVRAARTLLAKNLSFNITE-DELKEVFEDALEIRLVSQDGKS-KGIAYIEFKSEADAE 67

Query: 228 AALKS 232
             L+ 
Sbjct: 68  KNLEE 72

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 16/90 (17%), Positives = 39/90 (43%), Gaps = 9/90 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
            T +V N+P  + +   + + F+    +  + +  + +        +V+F + +  + AL
Sbjct: 16  YTAYVGNLPFNTVQ-GDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL 73

Query: 231 KSPDAVMGNRFIKLWWAN-RDSIPDDGISG 259
               A++G+R +++  A  R        SG
Sbjct: 74  TYDGALLGDRSLRVDIAEGRKQDKSGPSSG 103

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 9/90 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAALK 231
            L+V ++       + L   F+ FG++ +I +  +S+  R     F+ FS  E A  AL+
Sbjct: 7   GLYVGSLHFNITE-DMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65

Query: 232 SPD-AVMGNRFIKLWWAN-RDSIPDDGISG 259
             +   +  R +++     R        SG
Sbjct: 66  QLNGFELAGRPMRVGHVTERLDGGSGPSSG 95

>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 Length = 108

 Score = 39.8 bits (93), Expect = 3e-04
 Identities = 14/86 (16%), Positives = 36/86 (41%), Gaps = 3/86 (3%)

Query: 166 RNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREE 225
            +   PS+++   + V+ +P  S   + L  H ++ G+V    +  +     V+F ++E+
Sbjct: 5   SSGGPPSRRSENRVVVSGLP-PSGSWQDLKDHMREAGDVCYADVYRDGT-GVVEFVRKED 62

Query: 226 AEAALKSPD-AVMGNRFIKLWWANRD 250
              A++  D     +   +  +    
Sbjct: 63  MTYAVRKLDNTKFRSHEGETAYIRVK 88

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 3/61 (4%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAAL 230
                +  LF+ N+P ++  +E + S F+++G+V++  I  N    FV    +  AE A+
Sbjct: 3   SGSSGMVKLFIGNLPREATEQE-IRSLFEQYGKVLECDIIKN--YGFVHIEDKTAAEDAI 59

Query: 231 K 231
           +
Sbjct: 60  R 60

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 7/78 (8%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSKRE 224
                   +FV  +P       +L  +F+ FG++ +  +  + +    R   FV  + R 
Sbjct: 12  QKDTTFTKIFVGGLP-YHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRA 70

Query: 225 EAEAALKSPDAVMGNRFI 242
            AE A K P+ ++  R  
Sbjct: 71  AAERACKDPNPIIDGRKA 88

>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 = 39.2 bits (92), Expect = 4e-04
 Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 6/76 (7%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYI---PLNSER--AFVQFSKREEAEAALKS 232
            LF+ N+    +    L     +     D+ +      + R   +V F   E+ E AL+ 
Sbjct: 19  NLFIGNLNPNKSV-AELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALEL 77

Query: 233 PDAVMGNRFIKLWWAN 248
               +    IKL    
Sbjct: 78  TGLKVFGNEIKLEKPK 93

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 38.7 bits (91), Expect = 5e-04
 Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           +FV  +P        L  +F+KFG V ++ +  ++E+       F+ F   +  + A+  
Sbjct: 13  IFVGGIPHNCGE-TELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71

Query: 233 PDAVMGNRFI 242
               +  + +
Sbjct: 72  HFHDIMGKKV 81

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 38.2 bits (90), Expect = 5e-04
 Identities = 16/78 (20%), Positives = 38/78 (48%), Gaps = 8/78 (10%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE--R----AFVQFSKREEAEAALKS 232
           LFV ++ +  +  E L + F+ F   +  ++  + +        FV F+ +++A+ A+ S
Sbjct: 4   LFVGDLNVNVDD-ETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 62

Query: 233 PD-AVMGNRFIKLWWANR 249
                +  R +++ WA +
Sbjct: 63  MQGQDLNGRPLRINWAAK 80

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 39.2 bits (91), Expect = 5e-04
 Identities = 13/76 (17%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--------AFVQFSKREEAEA 228
           R +FV  +P      + + + F++FG +V  +      +        AF+ F +    +A
Sbjct: 9   RKVFVGGLP-PDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQA 67

Query: 229 ALKSPDAVMGNRFIKL 244
            + +     G  ++ +
Sbjct: 68  LIDACLEEDGKLYLCV 83

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 7/65 (10%)

Query: 192 EALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKSPD-AVMGNRFIKL 244
           E + + F  FG + D  +  +          FV F  + +AE A++      +G R I+ 
Sbjct: 30  EDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRT 89

Query: 245 WWANR 249
            WA R
Sbjct: 90  NWATR 94

>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 = 38.6 bits (90), Expect = 6e-04
 Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 12/59 (20%)

Query: 191 REALLSHFQKFGEVVDIYIPLNSE--------RAFVQFSKREEAEAALKSPDAVMGNRF 241
            E +     K+G V  I IP   +        + FV+F+   + + A++     +  R 
Sbjct: 29  VEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQG----LTGRK 83

>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 Length = 103

 Score = 38.7 bits (91), Expect = 6e-04
 Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 7/76 (9%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE----R--AFVQFSK 222
            K + +    L V  +P K+   + L  +F  FGEV+ + +  + +    +   FV+F++
Sbjct: 8   VKRAVQKTSDLIVLGLPWKTTE-QDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTE 66

Query: 223 REEAEAALKSPDAVMG 238
            E     +     + G
Sbjct: 67  YETQVKVMSQRHMIDG 82

>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 = 38.9 bits (91), Expect = 7e-04
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 6/53 (11%)

Query: 191 REALLSHFQKFGEVVDIYIPLNSE--RAFVQFSKREEAEAALKSPDAVMGNRF 241
           RE L     KFG++  + +        A V F   EEA+  +++    +  R+
Sbjct: 40  REDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQT----LDGRW 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	634
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.95
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.95
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.92
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.92
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.91
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.91
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.91
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.91
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.9
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.9
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.89
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.89
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.89
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.89
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.88
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.88
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.88
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.88
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.87
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.86
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.84
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.83
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.82
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.82
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.81
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.81
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.81
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.81
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.81
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.8
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.8
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.8
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.79
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.76
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.76
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.75
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.74
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.74
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.65
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.64
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.64
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.64
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.64
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.63
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.63
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.63
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.62
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.62
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.62
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.62
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.62
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.62
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.62
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.62
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.61
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.61
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.61
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.61
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.61
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.61
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.61
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.61
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.6
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.59
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.59
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.59
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.59
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.59
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.59
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.59
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.58
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.58
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.58
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.58
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.58
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.58
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.58
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.58
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.57
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.57
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.57
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.57
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.57
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.57
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.57
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.57
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.57
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.57
1x5p_A	97	Negative elongation factor E; structure genomics,	99.57
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.56
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.56
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.56
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.56
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.56
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.56
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.56
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.56
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.56
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.56
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.55
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.55
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.55
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.55
2div_A	99	TRNA selenocysteine associated protein; structural	99.55
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.54
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.54
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.54
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.54
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.54
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.54
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.54
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.54
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.53
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.53
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.53
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.53
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.53
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.53
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.52
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.52
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.52
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.52
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.52
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.52
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.52
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.51
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.51
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.5
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.5
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.5
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.5
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.49
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.49
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.49
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.49
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.49
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.49
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.49
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.49
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.49
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.48
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.48
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.48
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.48
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.48
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.48
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.48
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.48
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.48
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.48
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.48
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.48
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.47
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.21
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.47
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.46
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.46
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.46
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.46
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.45
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.45
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.45
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.45
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.44
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.44
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.44
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.44
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.43
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.43
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.42
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.42
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.42
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.42
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.42
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.42
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.41
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.41
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.4
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.4
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.39
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.39
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.39
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.38
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.38
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.37
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.36
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.35
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.34
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.34
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.34
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.34
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.34
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.32
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.28
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.26
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.26
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.23
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.22
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.2
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.19
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.19
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.17
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.17
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.16
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.15
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.15
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.15
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.15
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.14
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.14
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.14
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.13
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.13
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.13
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.13
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.12
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.12
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.11
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.11
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.11
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.11
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.1
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.1
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.09
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.08
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.08
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.08
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.08
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.07
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.07
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.07
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.07
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.06
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.06
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.06
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.06
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.06
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.05
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.05
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.05
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.04
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.04
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.04
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.04
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.04
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.04
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.04
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.03
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.03
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.03
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.03
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.02
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.02
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.02
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.02
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.01
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.01
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.01
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.01
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.01
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.01
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.01
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.0
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.0
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.0
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	98.99
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	98.99
1x5p_A	97	Negative elongation factor E; structure genomics,	98.99
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	98.98
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	98.98
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	98.98
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	98.98
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.98
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	98.98
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	98.98
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	98.97
2div_A	99	TRNA selenocysteine associated protein; structural	98.97
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	98.97
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	98.96
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.95
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	98.95
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.95
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.95
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	98.95
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	98.95
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	98.95
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	98.95
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	98.94
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	98.94
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	98.94
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	98.94
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	98.94
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	98.94
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	98.94
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.93
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	98.93
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	98.93
2dis_A	109	Unnamed protein product; structural genomics, RRM	98.93
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.92
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	98.92
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	98.92
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	98.91
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	98.91
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.91
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	98.9
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	98.9
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	98.9
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	98.9
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.89
1x4e_A	85	RNA binding motif, single-stranded interacting pro	98.89
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	98.89
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	98.89
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	98.89
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	98.89
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.89
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	98.88
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	98.88
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	98.87
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	98.87
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.87
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	98.87
1x5o_A	114	RNA binding motif, single-stranded interacting pro	98.86
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.86
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	98.86
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	98.85
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.85
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	98.85
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	98.84
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.83
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	98.83
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.83
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.83
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	98.83
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	98.83
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	98.83
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	98.82
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.81
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.81
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	98.8
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.8
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	98.79
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.28
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	98.79
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.77
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.77
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.76
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	98.76
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.75
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	98.75
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.73
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.73
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	98.73
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.72
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.72
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	98.72
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	98.69
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.68
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.67
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.65
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.64
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.62
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.61
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.6
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.6
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.59
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.57
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.56
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.54
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.51
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	98.48
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.48
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.42
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.26
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.22
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.12
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.1
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	97.9
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	97.84
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.79
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.75
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.65
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.38
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.15
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.08
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	96.91
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.54
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	95.59
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	95.28
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.16
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	93.58
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	92.48
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	89.36
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	88.93
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	85.91
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	82.93
3lcn_C	29	MRNA transport factor GFD1; nuclear mRNA export, m	82.14
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	81.31

>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=99.95  E-value=1.6e-27  Score=245.25  Aligned_cols=144  Identities=14%  Similarity=0.141  Sum_probs=123.6

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....+++.+..+|..+|.|..+..++++.+  ++|||||+|.+.++| +|+ .|||..|.|++|+|.++.   
T Consensus        44 l~V~n-Lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~~~---  116 (292)
T 2ghp_A           44 VLVKN-LPKSYNQNKVYKYFKHCGPIIHVDVADSLKK--NFRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSHLT---  116 (292)
T ss_dssp             EEEEE-ECTTCCHHHHHHHHGGGSCEEEEEEEECTTS--SSEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEECC---
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhcCCeEEEEEEECCCC--CcEEEEEEECCHHHHHHHH-HhCCcEeCCcEEEEEECC---
Confidence            34444 4456678888888888888887777765533  489999999999999 999 699999999999998652   


Q ss_pred             CCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCC-CEEEEEEecC-----CCeEEEEeCCHHHHH
Q 048615          154 MDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFG-EVVDIYIPLN-----SERAFVQFSKREEAE  227 (634)
Q Consensus       154 ~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG-~I~~v~v~~d-----kg~AFV~F~s~e~A~  227 (634)
                                            .++|||+|||++ +++++|+++|++|| .|..|+|+.+     ++||||+|.+.++|.
T Consensus       117 ----------------------~~~l~v~nlp~~-~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~  173 (292)
T 2ghp_A          117 ----------------------ECTLWMTNFPPS-YTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDAR  173 (292)
T ss_dssp             ----------------------SCEEEEECCCTT-CCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHH
T ss_pred             ----------------------CCEEEEECCCCC-CCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHH
Confidence                                  479999999995 99999999999999 9999999874     479999999999999


Q ss_pred             HHHHcCCC-ccCCeEEEEEeec
Q 048615          228 AALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       228 ~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +|+..++| .|+|+.|+|.|+.
T Consensus       174 ~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          174 YCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             HHHHHHTTCEETTEECEEEECC
T ss_pred             HHHHHhCCCEeCCcEEEEEECC
Confidence            99999999 8999999999985

>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=99.95  E-value=2.9e-27  Score=242.45  Aligned_cols=135  Identities=14%  Similarity=0.196  Sum_probs=118.3

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcccc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      ....+++.+..+|..+| |..+..      +.++|||||+|.+.++| +|+..|||..+.|++|+|.++.          
T Consensus        31 p~~~te~~l~~~F~~~G-i~~~~~------~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~----------   93 (284)
T 3smz_A           31 PGDVTNQEVHDLLSDYE-LKYCFV------DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQP----------   93 (284)
T ss_dssp             CTTCCHHHHHHHTTTSC-EEEEEE------ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC----------
T ss_pred             CCCCCHHHHHHHHHHcC-CEEEEE------ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecC----------
Confidence            34557778888888888 666644      23489999999999999 9999999999999999998642          


Q ss_pred             ccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCC
Q 048615          161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       161 ~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~ln  234 (634)
                                    ..++|||+|||++ +++++|+++|++||.|..|+++.++      +||||+|.+.++|.+|+..++
T Consensus        94 --------------~~~~l~v~nlp~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~  158 (284)
T 3smz_A           94 --------------TDALLCVANLPPS-LTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLL  158 (284)
T ss_dssp             --------------CSCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             --------------CCCEEEEcCCCCc-CCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence                          1469999999995 9999999999999999999998764      599999999999999999999


Q ss_pred             C-ccCCeEEEEEeec
Q 048615          235 A-VMGNRFIKLWWAN  248 (634)
Q Consensus       235 g-~l~gR~IkV~wak  248 (634)
                      | .++|+.|+|.|+.
T Consensus       159 ~~~~~g~~i~v~~a~  173 (284)
T 3smz_A          159 GKPLGPRTLYVHWTD  173 (284)
T ss_dssp             TCEETTEECEEEECC
T ss_pred             CCEeCCcEEEEEECC
Confidence            9 8999999999974

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.92  E-value=2.9e-25  Score=219.56  Aligned_cols=157  Identities=16%  Similarity=0.215  Sum_probs=135.3

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM  154 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~  154 (634)
                      .|+| +....+++.+..+|.++|.|..+++++++.++.++|||||+|.+.++| +||..|||..+.||.|++.++.....
T Consensus        19 fVgn-Lp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~~~~   97 (213)
T 4f02_A           19 YVGD-LHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPS   97 (213)
T ss_dssp             EEES-CCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCTH
T ss_pred             EEeC-CCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccccccccc
Confidence            3433 445667888999999999999888888888888899999999999999 99999999999999999998764321


Q ss_pred             CCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHH
Q 048615          155 DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAAL  230 (634)
Q Consensus       155 ~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai  230 (634)
                      ..                ....++|||+|||++ +++++|+++|++||.|..|+|++++    +||||+|.+.++|.+|+
T Consensus        98 ~~----------------~~~~~~l~v~nl~~~-~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai  160 (213)
T 4f02_A           98 LR----------------KSGVGNIFIKNLDKS-IDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAI  160 (213)
T ss_dssp             HH----------------HHCTTEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHH
T ss_pred             cc----------------ccccccceECCcccc-cHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHH
Confidence            00                011469999999995 9999999999999999999998764    69999999999999999


Q ss_pred             HcCCC-ccCCeEEEEEeecCC
Q 048615          231 KSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       231 ~~lng-~l~gR~IkV~wak~~  250 (634)
                      +.|+| .|+||.|+|.|+++.
T Consensus       161 ~~lng~~~~g~~i~V~~a~~~  181 (213)
T 4f02_A          161 EKMNGMLLNDRKVFVGRFKSR  181 (213)
T ss_dssp             HHHTTCEETTEECEEEECCCH
T ss_pred             HHhCCCEECCEEEEEEEcCCC
Confidence            99999 899999999999753

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.92  E-value=9.5e-25  Score=205.00  Aligned_cols=148  Identities=20%  Similarity=0.277  Sum_probs=130.9

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|..+|.|..+..++++.++.++|||||+|.+.++| +|+..|||..+.|++|+|.++.+....    
T Consensus        11 lp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~~~----   86 (168)
T 1b7f_A           11 LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGGES----   86 (168)
T ss_dssp             CCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCSST----
T ss_pred             CCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecCCCccc----
Confidence            334567788899999999988888888877778899999999999999 999999999999999999988754311    


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~l  233 (634)
                                    ...++|||+|||++ +++++|+++|++||.|..|.+++++      +||||+|.+.++|.+|+..+
T Consensus        87 --------------~~~~~l~v~nl~~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l  151 (168)
T 1b7f_A           87 --------------IKDTNLYVTNLPRT-ITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL  151 (168)
T ss_dssp             --------------TTTCEEEEESCCTT-CCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             --------------CCCCCEEEeCCCCC-CCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence                          22579999999995 9999999999999999999999875      69999999999999999999


Q ss_pred             CC-ccCC--eEEEEEee
Q 048615          234 DA-VMGN--RFIKLWWA  247 (634)
Q Consensus       234 ng-~l~g--R~IkV~wa  247 (634)
                      +| .++|  ++|+|.||
T Consensus       152 ~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          152 NNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             TTCCCTTCSSCCEEEEC
T ss_pred             cCCEecCCCeEEEEEeC
Confidence            99 7877  99999996

>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=1.3e-24  Score=203.09  Aligned_cols=151  Identities=19%  Similarity=0.258  Sum_probs=129.4

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|.++|.|..+..+.++. +.++|||||+|.+.++| +|+..|||..+.|++|+|.++.+....    
T Consensus         8 lp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~~~----   82 (166)
T 3md3_A            8 LDKAITEDILKQYFQVGGPIANIKIMIDKN-NKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQQS----   82 (166)
T ss_dssp             EETTCCHHHHHHHHGGGSCEEEEEEECCCC--CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCCCC----
T ss_pred             CCCcCCHHHHHHHHHhcCCeEEEEEEECCC-CCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCCCC----
Confidence            344567778888888888888777776664 45789999999999999 999999999999999999988654321    


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~l  233 (634)
                                  .....++|||+|||++ +++++|+++|++||.|..+.++.++      +||||+|.+.++|.+|+..|
T Consensus        83 ------------~~~~~~~l~v~nl~~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l  149 (166)
T 3md3_A           83 ------------SSDDTFNLFVGDLNVN-VDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM  149 (166)
T ss_dssp             ------------CCTTCEEEEEESCCTT-CCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHH
T ss_pred             ------------CCCCCceEEECCCCCC-CCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHh
Confidence                        1123579999999995 9999999999999999999998773      59999999999999999999


Q ss_pred             CC-ccCCeEEEEEeecC
Q 048615          234 DA-VMGNRFIKLWWANR  249 (634)
Q Consensus       234 ng-~l~gR~IkV~wak~  249 (634)
                      +| .|+||.|+|.|+++
T Consensus       150 ~g~~~~g~~i~v~~a~~  166 (166)
T 3md3_A          150 QGQDLNGRPLRINWAAK  166 (166)
T ss_dssp             TTCEETTEECEEEESCC
T ss_pred             CCCccCCcEEEEEecCC
Confidence            99 89999999999963

>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=99.91  E-value=2.6e-24  Score=207.34  Aligned_cols=157  Identities=12%  Similarity=0.189  Sum_probs=126.4

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcccc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKA  160 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~  160 (634)
                      ....+++.+..+|.++|.|..+..++++.++.++|||||+|.+.++| +||.. +|..+.|+.|.|.++........   
T Consensus        22 p~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~~~~~~~~~---   97 (196)
T 1l3k_A           22 SFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSREDSQR---   97 (196)
T ss_dssp             CTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEECCC---------
T ss_pred             CCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecccCcccccc---
Confidence            34557788888999999888888888877778899999999999999 89865 99999999999998875442111   


Q ss_pred             ccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCC
Q 048615          161 QNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPD  234 (634)
Q Consensus       161 ~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~ln  234 (634)
                               .......++|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+|+.. +
T Consensus        98 ---------~~~~~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~  166 (196)
T 1l3k_A           98 ---------PGAHLTVKKIFVGGIKED-TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-K  166 (196)
T ss_dssp             --------------CCSEEEEECCTTT-CCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-S
T ss_pred             ---------cccCCCcceEEEeCCCCC-CCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-C
Confidence                     011123589999999995 9999999999999999999999873      5999999999999999998 5


Q ss_pred             C-ccCCeEEEEEeecCCCCC
Q 048615          235 A-VMGNRFIKLWWANRDSIP  253 (634)
Q Consensus       235 g-~l~gR~IkV~wak~~~~~  253 (634)
                      + .|+|+.|+|.|+.+....
T Consensus       167 ~~~~~G~~i~v~~a~~k~~~  186 (196)
T 1l3k_A          167 YHTVNGHNCEVRKALSKQEM  186 (196)
T ss_dssp             CCEETTEECEEEECC-----
T ss_pred             CcEECCEEEEEEecCChhHh
Confidence            6 899999999999765543

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.91  E-value=8.7e-25  Score=213.80  Aligned_cols=163  Identities=15%  Similarity=0.246  Sum_probs=132.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|.++|.|..+..++++.++.++|||||+|.+.++| +|+..|||..|.|++|+|.++..........
T Consensus        36 Lp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~~~~~~~~~  115 (216)
T 2qfj_A           36 IYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPII  115 (216)
T ss_dssp             CCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSCCGGGHHHH
T ss_pred             CCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCCccccchhh
Confidence            334567788889999999988888888877778899999999999999 9999999999999999998876543211100


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~l  233 (634)
                      ....       ......++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|+..|
T Consensus       116 ~~~~-------~~~~~~~~l~v~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l  187 (216)
T 2qfj_A          116 DQLA-------EEARAFNRIYVASVHQD-LSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM  187 (216)
T ss_dssp             HHHH-------HHHTTSCEEEEECCCTT-CCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             hhhh-------cccCCCcEEEEeCCCCc-CCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHc
Confidence            0000       00123579999999995 999999999999999999999987      469999999999999999999


Q ss_pred             CC-ccCCeEEEEEeecCCC
Q 048615          234 DA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       234 ng-~l~gR~IkV~wak~~~  251 (634)
                      +| .|+||.|+|.|+++..
T Consensus       188 ~g~~~~g~~i~V~~a~~~~  206 (216)
T 2qfj_A          188 NLFDLGGQYLRVGKAVTPP  206 (216)
T ss_dssp             TTCBCSSSBCEEEECSSCS
T ss_pred             cCCEeCCcEEEEEEecCCC
Confidence            99 8999999999997543

>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=3e-24  Score=200.70  Aligned_cols=148  Identities=22%  Similarity=0.312  Sum_probs=129.1

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|.++|.|..+..++++.++.++|||||+|.+.++| +|+..|||..+.|++|+|.++.+...     
T Consensus        10 lp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~~-----   84 (167)
T 1fxl_A           10 LPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSSA-----   84 (167)
T ss_dssp             CCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCCG-----
T ss_pred             CCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCCCcc-----
Confidence            334567788888999999888888888887778899999999999999 99999999999999999998864331     


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~l  233 (634)
                                   ....++|||+|||+. +++++|+++|++||.|..|+++.++      +||||+|.+.++|.+|++.|
T Consensus        85 -------------~~~~~~l~v~nl~~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l  150 (167)
T 1fxl_A           85 -------------SIRDANLYVSGLPKT-MTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL  150 (167)
T ss_dssp             -------------GGTTCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             -------------cCCCCcEEECCCCCc-CCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHh
Confidence                         112479999999995 9999999999999999999998864      69999999999999999999


Q ss_pred             CC-ccCCeE--EEEEee
Q 048615          234 DA-VMGNRF--IKLWWA  247 (634)
Q Consensus       234 ng-~l~gR~--IkV~wa  247 (634)
                      +| .++||.  |+|.||
T Consensus       151 ~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          151 NGQKPSGATEPITVKFA  167 (167)
T ss_dssp             TTCCCTTCSSCCEEEEC
T ss_pred             cCCccCCCccceEEEeC
Confidence            99 799865  999986

>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=1.8e-23  Score=214.07  Aligned_cols=165  Identities=15%  Similarity=0.159  Sum_probs=127.5

Q ss_pred             CCccccccccc----cceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCC
Q 048615           81 GTAAVSQNTSM----SVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMD  155 (634)
Q Consensus        81 ~~~~~s~~~~~----svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~  155 (634)
                      +....+++.++    .+|.++|.|..+++++   ++.++|||||+|.+.++| +||..|||..|.||+|+|.++......
T Consensus        17 lp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~   93 (282)
T 3pgw_A           17 LNEKIKKDELKKSLYAIFSQFGQILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDI   93 (282)
T ss_pred             CCCCCCHHHHHHHHHHHHhccCCeEEEEEcC---CCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEeccCcch
Confidence            33445566643    7888888887776665   345699999999999999 999999999999999999988654410


Q ss_pred             Ccc--ccc-------------------------------------cc---------------------------------
Q 048615          156 PST--KAQ-------------------------------------ND---------------------------------  163 (634)
Q Consensus       156 ~~~--~~~-------------------------------------~d---------------------------------  163 (634)
                      ...  ...                                     +.                                 
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~p~~~~~~  173 (282)
T 3pgw_A           94 IAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPP  173 (282)
T ss_pred             hhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCC
Confidence            000  000                                     00                                 


Q ss_pred             --ccc---------------c----cCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeC
Q 048615          164 --HMR---------------N----IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFS  221 (634)
Q Consensus       164 --~~~---------------~----~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~  221 (634)
                        ...               .    .........++|||+|||++ +++++|+++|++||.|.+|+|+.++ +||||+|.
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-~~~~~l~~~F~~~G~i~~v~~~~~~~g~afV~f~  252 (282)
T 3pgw_A          174 GLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEE-TNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFD  252 (282)
T ss_pred             CCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCc-CCHHHHHHHHHhcCCeEEEEEecCCCcEEEEEeC
Confidence              000               0    00011234689999999995 9999999999999999999999887 89999999


Q ss_pred             CHHHHHHHHHcCCC-ccC-CeEEEEEeecC
Q 048615          222 KREEAEAALKSPDA-VMG-NRFIKLWWANR  249 (634)
Q Consensus       222 s~e~A~~Ai~~lng-~l~-gR~IkV~wak~  249 (634)
                      +.++|.+|+..|+| .|+ |+.|+|.|+++
T Consensus       253 ~~~~A~~A~~~l~g~~~~~g~~l~v~~akk  282 (282)
T 3pgw_A          253 NEVQAGAARDALQGFKITQNNAMKISFAKK  282 (282)
T ss_pred             CHHHHHHHHHHcCCcEeCCCCEEEEEEecC
Confidence            99999999999999 788 99999999973

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.90  E-value=9.3e-24  Score=203.75  Aligned_cols=167  Identities=11%  Similarity=0.153  Sum_probs=125.6

Q ss_pred             CCccccccccccceeeeccee--------eeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSK--------NRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~--------~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +....+++.+..+|..+|.+.        .+.+++.   +.++|||||+|.+.++| +|| .|||..|.|++|+|.++..
T Consensus        12 Lp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~---~~~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~v~~~~~   87 (198)
T 2yh0_A           12 IPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI---NQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPHD   87 (198)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEE---ETTTTEEEEEESCSHHHHHHG-GGTTEEETTEEEEEECCCC
T ss_pred             CCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEe---cCCCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEEEeCCCC
Confidence            344567777888888774321        1112222   23489999999999999 999 8999999999999999876


Q ss_pred             cCCCCccccc--cccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCH
Q 048615          152 KNMDPSTKAQ--NDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKR  223 (634)
Q Consensus       152 k~~~~~~~~~--~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~  223 (634)
                      ..........  ...............++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~  166 (198)
T 2yh0_A           88 YQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNY-LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDI  166 (198)
T ss_dssp             CCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTT-CCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSS
T ss_pred             CCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCC-CCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCH
Confidence            5422111000  00000001112245689999999995 999999999999999999999987      36999999999


Q ss_pred             HHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          224 EEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       224 e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ++|.+|++.|+| .|+||.|+|.|+++...
T Consensus       167 ~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  196 (198)
T 2yh0_A          167 NVTDQAIAGLNGMQLGDKKLLVQRASVGAK  196 (198)
T ss_dssp             SHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             HHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            999999999999 89999999999986543

>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=99.89  E-value=4e-23  Score=206.46  Aligned_cols=168  Identities=20%  Similarity=0.204  Sum_probs=132.7

Q ss_pred             cccccCCCc-cccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           75 LPVRNAGTA-AVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        75 ~~v~n~~~~-~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +.|+| +.. ..+++.+..+|.++|.|..+..++++     +|||||+|.+.++| +|+..|||..|.|++|+|.++...
T Consensus        37 l~V~n-Lp~~~~te~~L~~~F~~~G~i~~v~i~~~~-----~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~  110 (229)
T 2adc_A           37 LLVSN-LNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ  110 (229)
T ss_dssp             EEEES-CCTTTCCHHHHHHHHHHHTCEEEEEECCTT-----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             EEEeC-CCcccCCHHHHHHHHHhCCCeEEEEEEECC-----CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCc
Confidence            34444 445 66788899999999998888777665     79999999999999 999999999999999999998765


Q ss_pred             CCCCcc---------cccccc--ccc------cCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCC-CEEEEEEec-CC
Q 048615          153 NMDPST---------KAQNDH--MRN------IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFG-EVVDIYIPL-NS  213 (634)
Q Consensus       153 ~~~~~~---------~~~~d~--~~~------~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG-~I~~v~v~~-dk  213 (634)
                      ......         ..+...  .+.      ......++.++|||+|||++ +++++|+++|++|| .|..|+|++ ++
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~~i~~v~i~~~~~  189 (229)
T 2adc_A          111 NVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPS-VSEEDLKVLFSSNGGVVKGFKFFQKDR  189 (229)
T ss_dssp             CCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTT-CCHHHHHHHHHTTSCCEEEEEECSSST
T ss_pred             cccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCcc-CCHHHHHHHHHHcCCCeeEEEEEECCC
Confidence            311100         000000  000      00011234689999999995 99999999999999 999999955 78


Q ss_pred             CeEEEEeCCHHHHHHHHHcCCC-ccC-CeEEEEEeecC
Q 048615          214 ERAFVQFSKREEAEAALKSPDA-VMG-NRFIKLWWANR  249 (634)
Q Consensus       214 g~AFV~F~s~e~A~~Ai~~lng-~l~-gR~IkV~wak~  249 (634)
                      +||||+|.+.++|.+|+..|+| .++ ||.|+|.|+++
T Consensus       190 g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~  227 (229)
T 2adc_A          190 KMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  227 (229)
T ss_dssp             TCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             cEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecC
Confidence            9999999999999999999999 788 99999999975

>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=99.89  E-value=2e-23  Score=198.06  Aligned_cols=150  Identities=19%  Similarity=0.241  Sum_probs=122.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|.++|.+.. ..+.+..++.++|||||+|.+.++| +|+ +|||..+.|++|+|.++..+....   
T Consensus        21 Lp~~~t~~~l~~~f~~~g~~~~-~~~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~~~~~~~---   95 (175)
T 1fje_B           21 LNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGRDSKK---   95 (175)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCCSSCST---
T ss_pred             CCCCCCHHHHHHHHHHhCCcce-EEEEECCCCccccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCCCccccc---
Confidence            3445677778888888777554 2344445556799999999999999 999 699999999999999987654211   


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEe--cCCCeEEEEeCCHHHHHHHHHcCCC-c
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP--LNSERAFVQFSKREEAEAALKSPDA-V  236 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~--~dkg~AFV~F~s~e~A~~Ai~~lng-~  236 (634)
                                   ....++|||+|||++ +++++|+++|++||.|..+ ..  ..++||||+|.+.++|.+|+..|+| .
T Consensus        96 -------------~~~~~~l~v~nlp~~-~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~  160 (175)
T 1fje_B           96 -------------VRAARTLLAKNLSFN-ITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAE  160 (175)
T ss_dssp             -------------TGGGGEEEEESCCSS-CCHHHHHHHCTTCSEEEEE-CSSSSCCSEEEEECSSHHHHHHHHHHHTEEE
T ss_pred             -------------cccCCEEEEeCCCCC-CCHHHHHHHHHhcCeEEEe-cCCCCCceEEEEEECCHHHHHHHHHHhCCCE
Confidence                         122579999999995 9999999999999999877 11  1357999999999999999999999 8


Q ss_pred             cCCeEEEEEeecCC
Q 048615          237 MGNRFIKLWWANRD  250 (634)
Q Consensus       237 l~gR~IkV~wak~~  250 (634)
                      |+||.|+|.|+++.
T Consensus       161 ~~g~~i~v~~a~~k  174 (175)
T 1fje_B          161 IDGRSVSLYYTGEK  174 (175)
T ss_dssp             ETTEEEEEEECSSC
T ss_pred             ECCeEEEEEecCCC
Confidence            99999999999753

>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=99.89  E-value=8.9e-24  Score=198.46  Aligned_cols=147  Identities=16%  Similarity=0.255  Sum_probs=127.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|..+|.|..+..++++.++.++|||||+|.+.++| +|+..  +..+.|+.|.|.++.++...    
T Consensus        11 Lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~~~~~----   84 (167)
T 2cjk_A           11 LNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIPRDEQ----   84 (167)
T ss_dssp             CCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCCHHHH----
T ss_pred             CCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccchhhc----
Confidence            344567888999999999999888888887788899999999999999 99975  67999999999877643210    


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcC
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~l  233 (634)
                                    ...++|||+|||++ +++++|+++|++||.|..|+|+.++      |||||+|.+.++|.+|++ +
T Consensus        85 --------------~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~  148 (167)
T 2cjk_A           85 --------------DKTGKIFVGGIGPD-VRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-N  148 (167)
T ss_dssp             --------------HHCEEEEEEEECTT-CCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-C
T ss_pred             --------------cCCCeEEECCCCCC-CCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-C
Confidence                          11469999999995 9999999999999999999998864      599999999999999998 7


Q ss_pred             CC-ccCCeEEEEEeecC
Q 048615          234 DA-VMGNRFIKLWWANR  249 (634)
Q Consensus       234 ng-~l~gR~IkV~wak~  249 (634)
                      ++ .|+||.|+|.|+.+
T Consensus       149 ~~~~~~g~~i~V~~a~p  165 (167)
T 2cjk_A          149 KFIDFKDRKIEIKRAEP  165 (167)
T ss_dssp             SEECSSSSCEEEEECCC
T ss_pred             CCEEeCCeEEEEeecCC
Confidence            88 89999999999975

>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=99.89  E-value=2.6e-23  Score=213.06  Aligned_cols=187  Identities=16%  Similarity=0.154  Sum_probs=148.4

Q ss_pred             CchhhhcccCC-CCCccccccCCCCCCccccccCCCCCCcccccCCCccccccccccceeeecceeeeeccccccCCCcC
Q 048615           37 TSPGLAALHSS-NDETESLLNEDSSNNHHLRASDSADNDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLN  115 (634)
Q Consensus        37 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~h~~~~~~~~~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~  115 (634)
                      |..|+..+|+. +........... ....+||+.+           ....+++.+..+|..+|.|..+..+.++.++.++
T Consensus        70 A~~A~~~l~~~~~~g~~i~v~~~~-~~~~l~v~nl-----------p~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~  137 (284)
T 3smz_A           70 AEAAINAFHQSRLRERELSVQLQP-TDALLCVANL-----------PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSK  137 (284)
T ss_dssp             HHHHHHHHTTCEETTEECEEEECC-CSCEEEEESC-----------CTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE
T ss_pred             HHHHHHHcCCCeeCCeEEEEEecC-CCCEEEEcCC-----------CCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccc
Confidence            44588888887 333332221111 1223444444           3455777888888888888888777777777889


Q ss_pred             ceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCC-CHHH
Q 048615          116 SLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSN-RREA  193 (634)
Q Consensus       116 GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~-te~~  193 (634)
                      |||||+|.+.++| +|+..|||..+.|++|+|.++.++....               .....++|||+|||++ + ++++
T Consensus       138 g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~~~---------------~~~~~~~l~v~nlp~~-~~~~~~  201 (284)
T 3smz_A          138 GYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP---------------ALLHSRCLCVDRLPPG-FNDVDA  201 (284)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGCCT---------------TTTSCSEEEEECCCTT-CCCHHH
T ss_pred             eEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCCCc---------------ccCCccEEEEecCCcc-cCCHHH
Confidence            9999999999999 9999999999999999999987654221               1123579999999995 6 9999


Q ss_pred             HHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          194 LLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       194 L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      |+++|++||.|..|+|+.+     ++||||+|.+.++|.+|+..|+| .|+||.|+|.|+++..
T Consensus       202 l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~  265 (284)
T 3smz_A          202 LCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGP  265 (284)
T ss_dssp             HHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCSSS
T ss_pred             HHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecCCC
Confidence            9999999999999999887     57999999999999999999999 8999999999997543

>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=99.88  E-value=4.5e-23  Score=194.53  Aligned_cols=148  Identities=17%  Similarity=0.185  Sum_probs=124.6

Q ss_pred             CccccccccccceeeecceeeeeccccccCC--CcCceEEEEcCCHHHH-HHHhccCCceeC---CEEEEEccCcccCCC
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDA--TLNSLDYLENETKEDR-EALPSLQGSYRR---GKRIIEGDAIQKNMD  155 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~--~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~---GR~I~V~~a~~k~~~  155 (634)
                      ....+++.+..+|.++|.|..+..++++.++  .++|||||+|.+.++| +|+..|||..+.   +++|.+.++......
T Consensus        12 p~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~   91 (175)
T 3nmr_A           12 PRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNN   91 (175)
T ss_dssp             CTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECGGGCCS
T ss_pred             CCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEccccccccc
Confidence            3456777888888888888888777777665  6799999999999999 999999998876   677888876544321


Q ss_pred             CccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHH
Q 048615          156 PSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAAL  230 (634)
Q Consensus       156 ~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai  230 (634)
                                       ....++|||+|||++ +++++|+++|++||.|..|+++++     ++||||+|.+.++|.+|+
T Consensus        92 -----------------~~~~~~l~v~nl~~~-~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~  153 (175)
T 3nmr_A           92 -----------------AVEDRKLFIGMISKK-CTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAI  153 (175)
T ss_dssp             -----------------CGGGSEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHH
T ss_pred             -----------------cCCCCeEEEcCCCCc-CCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHH
Confidence                             112579999999995 999999999999999999999987     469999999999999999


Q ss_pred             HcCCC-ccC---CeEEEEEee
Q 048615          231 KSPDA-VMG---NRFIKLWWA  247 (634)
Q Consensus       231 ~~lng-~l~---gR~IkV~wa  247 (634)
                      +.|+| .+.   +|+|+|.||
T Consensus       154 ~~l~g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A          154 KAMHQAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             HHHTTSCCCTTCSSCCEEEEC
T ss_pred             HHhcCCcccCCCCCCeEEEec
Confidence            99998 444   499999997

>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=6.2e-23  Score=193.59  Aligned_cols=142  Identities=12%  Similarity=0.197  Sum_probs=118.8

Q ss_pred             CCccccccccccceeeec-----------ceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEcc
Q 048615           81 GTAAVSQNTSMSVWGRIG-----------SSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGD  148 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig-----------~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~  148 (634)
                      +....+++.+..+|.++|           .|..+..   .   .++|||||+|.+.++| +|+ .|||..+.|++|+|.+
T Consensus        12 Lp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~---~---~~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~   84 (172)
T 2g4b_A           12 IPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI---N---QDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRR   84 (172)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEE---E---TTTTEEEEEESSHHHHHHHG-GGTTCEETTEECEEEC
T ss_pred             CCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEe---c---CCCCEEEEEeCCHHHHHHHH-HhCCcEecCceeeecC
Confidence            444567788888888873           3333322   2   3389999999999999 999 9999999999999998


Q ss_pred             CcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCC
Q 048615          149 AIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSK  222 (634)
Q Consensus       149 a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s  222 (634)
                      +......                  ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+
T Consensus        85 ~~~~~~~------------------~~~~~l~v~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~  145 (172)
T 2g4b_A           85 PHDYQPL------------------PGAHKLFIGGLPNY-LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVD  145 (172)
T ss_dssp             CSSCCCC------------------TTTTCEEEECCCTT-CCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESS
T ss_pred             CcccCCC------------------CCCCEEEEEcCCCc-CCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCC
Confidence            7543211                  12579999999995 9999999999999999999999873      699999999


Q ss_pred             HHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          223 REEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       223 ~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|.+|+..|+| .|+||.|+|.||.
T Consensus       146 ~~~A~~A~~~l~g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          146 INVTDQAIAGLNGMQLGDKKLLVQRAS  172 (172)
T ss_dssp             TTHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             HHHHHHHHHHcCCCEECCeEEEEEeCC
Confidence            9999999999999 8999999999983

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.88  E-value=7.5e-23  Score=198.47  Aligned_cols=163  Identities=19%  Similarity=0.200  Sum_probs=128.9

Q ss_pred             CCc-cccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCcc
Q 048615           81 GTA-AVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPST  158 (634)
Q Consensus        81 ~~~-~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~  158 (634)
                      +.. ..+++.+..+|.++|.|..+..+.++     +|||||+|.+.++| +|+..|||..+.|++|+|.++.........
T Consensus        11 lp~~~~~~~~l~~~F~~~G~i~~v~i~~~~-----~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~~~~~~   85 (198)
T 1qm9_A           11 LNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPR   85 (198)
T ss_dssp             CCSSSCCHHHHHHHHHTTCCCSEEECSTTC-----SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCSCCCSS
T ss_pred             CCcccCCHHHHHHHHHhcCCEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCCcCCCC
Confidence            344 55778888888888888877776654     79999999999999 999999999999999999988755311100


Q ss_pred             ---------cccccc--cc------ccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCC-CEEEEEEec-CCCeEEEE
Q 048615          159 ---------KAQNDH--MR------NIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFG-EVVDIYIPL-NSERAFVQ  219 (634)
Q Consensus       159 ---------~~~~d~--~~------~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG-~I~~v~v~~-dkg~AFV~  219 (634)
                               ..+...  .+      .......++.++|||+|||++ +++++|+++|++|| .|..|+|.+ +++||||+
T Consensus        86 ~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~-~~~~~l~~~f~~~G~~v~~v~i~~~~~g~afV~  164 (198)
T 1qm9_A           86 EGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPS-VSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQ  164 (198)
T ss_dssp             SSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTT-CCHHHHHHHHHHTTSCCCEEEESSTTSSCEEEE
T ss_pred             cCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCC-CCHHHHHHHHHHcCCCceEEEEEeCCCcEEEEE
Confidence                     000000  00      000011234789999999995 99999999999999 999999966 67999999


Q ss_pred             eCCHHHHHHHHHcCCC-ccC-CeEEEEEeecC
Q 048615          220 FSKREEAEAALKSPDA-VMG-NRFIKLWWANR  249 (634)
Q Consensus       220 F~s~e~A~~Ai~~lng-~l~-gR~IkV~wak~  249 (634)
                      |.+.++|.+|+..++| .++ |+.|+|.|+++
T Consensus       165 f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~  196 (198)
T 1qm9_A          165 MGSVEEAVQALIDLHNHDLGENHHLRVSFSKS  196 (198)
T ss_dssp             CSSHHHHHHHHHHHTSSCCSSCCSCCEEEECC
T ss_pred             eCCHHHHHHHHHHhcCCccCCCCeEEEEeecc
Confidence            9999999999999999 788 99999999974

>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=99.88  E-value=9.3e-23  Score=201.72  Aligned_cols=165  Identities=15%  Similarity=0.161  Sum_probs=125.4

Q ss_pred             ccccCCC-ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           76 PVRNAGT-AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        76 ~v~n~~~-~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .|+| +. ...+++.++.+|..+|.|..++.++++     +|||||+|.+.++| .||..|||..|.||+|+|.++..+.
T Consensus         8 ~V~n-L~~~~~~~~~L~~~F~~~G~v~~v~i~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~~   81 (205)
T 3tyt_A            8 MVYG-LDQSKMNCDRVFNVFCLYGNVEKVKFMKSK-----PGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPA   81 (205)
T ss_dssp             EEEC-CCTTTCCHHHHHHHHTTTSCEEEEEECTTS-----TTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSC
T ss_pred             EEeC-CCcccCCHHHHHHHHHhcCCeEEEEEecCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCCc
Confidence            4444 44 356777888888888888888777643     79999999999999 9999999999999999999987543


Q ss_pred             CCCcc-----------cccccc--ccc------cCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCE--EEEEEecC
Q 048615          154 MDPST-----------KAQNDH--MRN------IRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEV--VDIYIPLN  212 (634)
Q Consensus       154 ~~~~~-----------~~~~d~--~~~------~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I--~~v~v~~d  212 (634)
                      ..+..           +.+...  .+.      ......++.++|||+|||++ +++++|+++|++||.|  ..|+|+.+
T Consensus        82 ~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~-~t~~~L~~~F~~~G~v~~~~v~~~~~  160 (205)
T 3tyt_A           82 IMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLE-VTEENFFEICDELGVKRPTSVKVFSG  160 (205)
T ss_dssp             CCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTT-CCHHHHHHHHHHHTCCCCSEEEECSC
T ss_pred             cCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCC-CCHHHHHHHHHhcCCcceEEEEEEcC
Confidence            21110           000000  000      00001234679999999995 9999999999999999  89999876


Q ss_pred             C----CeEEEEeCCHHHHHHHHHcCCC-ccCCe----EEEEEee
Q 048615          213 S----ERAFVQFSKREEAEAALKSPDA-VMGNR----FIKLWWA  247 (634)
Q Consensus       213 k----g~AFV~F~s~e~A~~Ai~~lng-~l~gR----~IkV~wa  247 (634)
                      +    +||||+|.+.++|.+||..||| .|+|+    ++.|.|+
T Consensus       161 ~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          161 KSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             CSSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             CCCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence            3    6999999999999999999999 78776    5666664

>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=99.87  E-value=5.3e-22  Score=202.24  Aligned_cols=137  Identities=17%  Similarity=0.201  Sum_probs=119.0

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccc
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQ  161 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~  161 (634)
                      ...+++.+..+|..+|.|..+..++      .+|||||+|.+.++| +|+..|||..|.|++|+|.++.+          
T Consensus        32 ~~~te~~l~~~F~~~G~i~~v~i~~------~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~~----------   95 (261)
T 3sde_A           32 TDITEEDFKRLFERYGEPSEVFINR------DRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATH----------   95 (261)
T ss_dssp             TTCCHHHHHHHTGGGCCCSEEEEET------TTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC----------
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEeC------CCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeeccc----------
Confidence            3557777888888888877776543      279999999999999 99999999999999999998752          


Q ss_pred             cccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCC-C
Q 048615          162 NDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPD-A  235 (634)
Q Consensus       162 ~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~ln-g  235 (634)
                                    .++|||+|||+. +++++|+++|++||.|..|.|+.+     ++||||+|.+.++|.+|+..++ +
T Consensus        96 --------------~~~l~v~nl~~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~  160 (261)
T 3sde_A           96 --------------GAALTVKNLSPV-VSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDG  160 (261)
T ss_dssp             --------------SSEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHS
T ss_pred             --------------CCcccccCCCCC-CCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCC
Confidence                          369999999995 999999999999999999999887     4799999999999999999995 4


Q ss_pred             -ccC---CeEEEEEeecCC
Q 048615          236 -VMG---NRFIKLWWANRD  250 (634)
Q Consensus       236 -~l~---gR~IkV~wak~~  250 (634)
                       .+.   +|+|.|.|+...
T Consensus       161 ~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          161 AFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             CEESSSSCCBCEEEECCCE
T ss_pred             eEEecCCCceEEEeecccc
Confidence             444   999999999754

>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=99.86  E-value=5.8e-22  Score=203.78  Aligned_cols=154  Identities=21%  Similarity=0.295  Sum_probs=123.8

Q ss_pred             Cccccccccccceeeec-ceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           82 TAAVSQNTSMSVWGRIG-SSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig-~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      ....+.+.+..+|..+| .|..+..+.++. +.++|||||+|.+.++| +|+..|||..|.|++|+|.++.+....... 
T Consensus       126 p~~~t~~~l~~~f~~~G~~i~~v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~~~-  203 (292)
T 2ghp_A          126 PPSYTQRNIRDLLQDINVVALSIRLPSLRF-NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRT-  203 (292)
T ss_dssp             CTTCCHHHHHHHHHHTTCCCCEEECC--------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC-------
T ss_pred             CCCCCHHHHHHHHHHhCCCeEEEEEEeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCcccccc-
Confidence            34457777888888888 888777776665 46699999999999999 999999999999999999998765422111 


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCC-CCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHH
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKS-NRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALK  231 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~-~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~  231 (634)
                                .......++|||+|||+ . +++++|+++|++||.|..|+|+.+       ++||||+|.+.++|.+|+ 
T Consensus       204 ----------~~~~~~~~~l~v~nlp~-~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-  271 (292)
T 2ghp_A          204 ----------DSATLEGREIMIRNLST-ELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-  271 (292)
T ss_dssp             -------------CCTTTEEEEEEECT-TTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-
T ss_pred             ----------cccCCCCceEEEECCCc-ccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-
Confidence                      01123468999999999 7 999999999999999999999875       369999999999999999 


Q ss_pred             cCCC-ccCCeEEEEEeecC
Q 048615          232 SPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       232 ~lng-~l~gR~IkV~wak~  249 (634)
                      .++| .|+||.|+|.|+++
T Consensus       272 ~l~g~~~~g~~i~V~~a~~  290 (292)
T 2ghp_A          272 QMNRSLLGNREISVSLADK  290 (292)
T ss_dssp             GGTTEEETTEEEEEEECCC
T ss_pred             HhcCCEECCcEEEEEEecC
Confidence            9999 89999999999975

>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=99.84  E-value=1.2e-19  Score=185.54  Aligned_cols=76  Identities=26%  Similarity=0.484  Sum_probs=69.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHH----HhhccCCCEEEEEEec---CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALL----SHFQKFGEVVDIYIPL---NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~----~~FskfG~I~~v~v~~---dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      +++++|||+|||++ +++++|+    ++|++||.|.+|+|++   .++||||+|.+.++|.+|++.++| .|.||.|+|.
T Consensus         7 ~~~~~l~V~nlp~~-~~~~~l~~~L~~~F~~~G~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   85 (282)
T 3pgw_A            7 RPNHTIYINNLNEK-IKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   85 (282)
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHHHhccCCeEEEEEcCCCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEE
Confidence            45789999999995 9999977    8999999999999886   357999999999999999999999 7999999999


Q ss_pred             eecCC
Q 048615          246 WANRD  250 (634)
Q Consensus       246 wak~~  250 (634)
                      |++..
T Consensus        86 ~a~~~   90 (282)
T 3pgw_A           86 YAKTD   90 (282)
T ss_pred             EeccC
Confidence            99643

>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=99.83  E-value=1e-20  Score=177.13  Aligned_cols=135  Identities=16%  Similarity=0.219  Sum_probs=110.4

Q ss_pred             CcCceEEEEcCCHHHH-HHHhcc-CCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCC
Q 048615          113 TLNSLDYLENETKEDR-EALPSL-QGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNR  190 (634)
Q Consensus       113 ~s~GfgFVeF~~~e~A-~Ai~~m-nG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~t  190 (634)
                      .++|+++|+|.+.++| +|+..| ||..++| +|++.++..+........  ..............++|||+|||++ ++
T Consensus        11 ~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~V~nl~~~-~t   86 (150)
T 2i2y_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSH--HHHHHMHRDSCPLDCKVYVGNLGNN-GN   86 (150)
T ss_dssp             SSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSS--SCCCCSCSSSSTTSCEEEEESCCSC-CS
T ss_pred             cccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccc--cccccccccCCCCCCEEEEeCCCCC-CC
Confidence            4689999999999999 999999 9999999 999998875431100000  0000011122345789999999995 99


Q ss_pred             HHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          191 REALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       191 e~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      +++|+.+|++||.|.+|+|+.+ ++||||+|.+.++|.+|+..|+| .|+||.|+|.|+++.+
T Consensus        87 ~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  149 (150)
T 2i2y_A           87 KTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGEK  149 (150)
T ss_dssp             CHHHHHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCCC
T ss_pred             HHHHHHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCCC
Confidence            9999999999999999999998 89999999999999999999999 8999999999998653

>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=99.82  E-value=4.4e-19  Score=177.12  Aligned_cols=76  Identities=21%  Similarity=0.345  Sum_probs=70.8

Q ss_pred             CCCCEEEEeCCCC-CCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPL-KSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~-d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +++++|||+|||+ + +++++|+++|++||.|.+|+|++++ +||||+|.+.++|.+|++.+++ .|+|+.|+|.|++..
T Consensus        32 ~~~~~l~V~nLp~~~-~te~~L~~~F~~~G~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~  110 (229)
T 2adc_A           32 AGNSVLLVSNLNPER-VTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ  110 (229)
T ss_dssp             CCCSEEEEESCCTTT-CCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCCCEEEEeCCCccc-CCHHHHHHHHHhCCCeEEEEEEECCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCc
Confidence            4478999999999 7 9999999999999999999999885 8999999999999999999999 899999999999743

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.82  E-value=1.5e-19  Score=178.56  Aligned_cols=73  Identities=21%  Similarity=0.436  Sum_probs=66.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.+.++|.+|++.+++ .+.||.|++.|+
T Consensus        14 p~~tlfVgnLp~~-~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~   92 (213)
T 4f02_A           14 PMASLYVGDLHPD-VTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS   92 (213)
T ss_dssp             -CCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCcEEEEeCCCCC-CCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccc
Confidence            4689999999995 9999999999999999999999864      5999999999999999999999 799999998875


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      .
T Consensus        93 ~   93 (213)
T 4f02_A           93 Q   93 (213)
T ss_dssp             C
T ss_pred             c
Confidence            3

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.81  E-value=4.9e-19  Score=171.53  Aligned_cols=74  Identities=22%  Similarity=0.354  Sum_probs=69.6

Q ss_pred             CCEEEEeCCCC-CCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPL-KSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~-d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +++|||+|||+ + +++++|+++|++||.|.+|+|+.++ +||||+|.+.++|.+|+..++| .++|+.|+|.|++..
T Consensus         3 ~~~l~v~nlp~~~-~~~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~   79 (198)
T 1qm9_A            3 NSVLLVSNLNPER-VTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   79 (198)
T ss_dssp             CCEEEEECCCSSS-CCHHHHHHHHHTTCCCSEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCC
T ss_pred             CcEEEEeCCCccc-CCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCC
Confidence            57999999999 7 9999999999999999999999885 8999999999999999999999 899999999999744

>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=99.81  E-value=3.4e-19  Score=167.91  Aligned_cols=71  Identities=25%  Similarity=0.478  Sum_probs=66.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccC----C-------CEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKF----G-------EVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~Fskf----G-------~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      .++|||+|||++ +++++|+++|++|    |       .|.++.+..+++||||+|.+.++|.+|+ .+++ .++|+.|+
T Consensus         4 ~~~l~V~nLp~~-~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~   81 (172)
T 2g4b_A            4 ARRLYVGNIPFG-ITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLK   81 (172)
T ss_dssp             GGEEEEESCCTT-CCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHG-GGTTCEETTEECE
T ss_pred             ccEEEEcCCCcc-cCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHH-HhCCcEecCceee
Confidence            589999999995 9999999999999    7       8999999999999999999999999999 8999 89999999


Q ss_pred             EEeec
Q 048615          244 LWWAN  248 (634)
Q Consensus       244 V~wak  248 (634)
                      |.|++
T Consensus        82 v~~~~   86 (172)
T 2g4b_A           82 IRRPH   86 (172)
T ss_dssp             EECCS
T ss_pred             ecCCc
Confidence            98753

>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=99.81  E-value=5.7e-19  Score=165.47  Aligned_cols=72  Identities=24%  Similarity=0.354  Sum_probs=67.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +++|||+|||++ +++++|+++|++||.|.+|++++++      +||||+|.+.++|.+|++.+++ .++|+.|+|.|++
T Consensus         3 ~~~l~v~nlp~~-~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            3 NTNLIVNYLPQD-MTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CSEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            589999999995 9999999999999999999998764      6999999999999999999999 7999999999874

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.81  E-value=1.5e-18  Score=167.08  Aligned_cols=71  Identities=25%  Similarity=0.478  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccC----C-------CEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKF----G-------EVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~Fskf----G-------~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      .++|||+|||++ +++++|+++|++|    |       .|.++.+...++||||+|.+.++|.+|+ .++| .|+|+.|+
T Consensus         4 ~~~l~V~nLp~~-~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~   81 (198)
T 2yh0_A            4 ARRLYVGNIPFG-ITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLK   81 (198)
T ss_dssp             CCEEEEESCCTT-CCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHG-GGTTEEETTEEEE
T ss_pred             eeEEEEcCCCCC-CCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEE
Confidence            589999999995 9999999999999    6       8999999999999999999999999999 8999 89999999


Q ss_pred             EEeec
Q 048615          244 LWWAN  248 (634)
Q Consensus       244 V~wak  248 (634)
                      |.|++
T Consensus        82 v~~~~   86 (198)
T 2yh0_A           82 IRRPH   86 (198)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            99876

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.81  E-value=1.2e-18  Score=170.01  Aligned_cols=72  Identities=22%  Similarity=0.408  Sum_probs=65.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+++      ++||||+|.+.++|.+|++.+++ .|+|+.|+|.|+.
T Consensus        28 ~~~l~V~nLp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~  106 (216)
T 2qfj_A           28 MSRVYVGSIYYE-LGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPS  106 (216)
T ss_dssp             HTEEEEECCCTT-CCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCS
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCC
Confidence            579999999995 999999999999999999999875      47999999999999999999999 8999999997653

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.80  E-value=7.2e-19  Score=163.91  Aligned_cols=71  Identities=28%  Similarity=0.478  Sum_probs=66.4

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ++|||+|||++ +++++|+++|++||.|.+|+++.++     +||||+|.+.++|.+|+..+++ .+.|+.|+|.|+.
T Consensus         1 R~l~V~nlp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~   77 (166)
T 3md3_A            1 RVLYVGNLDKA-ITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAF   77 (166)
T ss_dssp             CEEEEEEEETT-CCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CEEEECCCCCc-CCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcC
Confidence            58999999995 9999999999999999999998765     6999999999999999999999 7999999999874

>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=99.80  E-value=2.5e-19  Score=168.47  Aligned_cols=134  Identities=21%  Similarity=0.289  Sum_probs=100.5

Q ss_pred             CcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCH
Q 048615          113 TLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRR  191 (634)
Q Consensus       113 ~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te  191 (634)
                      +++|||||+|.+.++| +|+..+++.......+.+...........     ..............++|||+|||++ +++
T Consensus        11 ~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~l~v~nl~~~-~~~   84 (158)
T 2kn4_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE-----GSHHHHHHMDVEGMTSLKVDNLTYR-TSP   84 (158)
T ss_dssp             SCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEEC-----CCCCSSCCCCCCBCCEEEEESCCTT-CCH
T ss_pred             cccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccc-----cccccccccCCCCCCEEEEeCCCCC-CCH
Confidence            4689999999999999 99988887544433434332221110000     0000000111233689999999995 999


Q ss_pred             HHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          192 EALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       192 ~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+..|+| .|+||.|+|.|+++.+.
T Consensus        85 ~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A           85 DTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             HHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECCSSC
T ss_pred             HHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCCC
Confidence            9999999999999999998863      6999999999999999999999 89999999999986554

>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=99.80  E-value=1.7e-18  Score=166.60  Aligned_cols=73  Identities=26%  Similarity=0.474  Sum_probs=66.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|.+|.|+.++      +||||+|.+.++|.+|+.. ++ .|+|+.|+|.|
T Consensus        11 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~   88 (196)
T 1l3k_A           11 EQLRKLFIGGLSFE-TTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKR   88 (196)
T ss_dssp             GGGGEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeec
Confidence            34689999999995 9999999999999999999999864      5999999999999999988 55 89999999998


Q ss_pred             ec
Q 048615          247 AN  248 (634)
Q Consensus       247 ak  248 (634)
                      +.
T Consensus        89 ~~   90 (196)
T 1l3k_A           89 AV   90 (196)
T ss_dssp             CC
T ss_pred             cc
Confidence            74

>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=99.79  E-value=2e-18  Score=161.11  Aligned_cols=72  Identities=24%  Similarity=0.371  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|++++++      +||||+|.+.++|.+|++.+++ .++|+.|+|.|++
T Consensus         2 ~~~l~v~nlp~~-~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   80 (167)
T 1fxl_A            2 KTNLIVNYLPQN-MTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (167)
T ss_dssp             CSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cceEEEcCCCCC-CCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecC
Confidence            579999999995 9999999999999999999999876      7999999999999999999999 8999999999874

>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=99.76  E-value=1.9e-17  Score=163.59  Aligned_cols=74  Identities=14%  Similarity=0.182  Sum_probs=69.3

Q ss_pred             CCEEEEeCCC-CCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVP-LKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp-~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +++|||+||| +. +++++|+++|++||.|.+|+|+++ ++||||+|.+.++|.+|++.||| .|.||.|+|.|++..
T Consensus         4 ~~~l~V~nL~~~~-~~~~~L~~~F~~~G~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~   80 (205)
T 3tyt_A            4 SPVLMVYGLDQSK-MNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQP   80 (205)
T ss_dssp             CSEEEEECCCTTT-CCHHHHHHHHTTTSCEEEEEECTTSTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCS
T ss_pred             CCEEEEeCCCccc-CCHHHHHHHHHhcCCeEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCC
Confidence            6899999999 74 999999999999999999999986 58999999999999999999999 899999999999743

>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=99.76  E-value=1.2e-17  Score=156.51  Aligned_cols=70  Identities=20%  Similarity=0.369  Sum_probs=62.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.+.++|.+|+..+ ..++|+.|.|.|+
T Consensus         3 ~~~l~v~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~-~~~~g~~i~v~~~   78 (167)
T 2cjk_A            3 SCKMFIGGLNWD-TTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ-HILDGKVIDPKRA   78 (167)
T ss_dssp             GGEEEECSCCTT-CCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHSC-CEETTEECCCEEC
T ss_pred             CcEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhcc-cccCCeEcccccc
Confidence            589999999995 9999999999999999999998864      69999999999999999962 3788888876654

>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=99.75  E-value=1.4e-17  Score=169.56  Aligned_cols=72  Identities=25%  Similarity=0.456  Sum_probs=68.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+.+|++||.|..|.|.++++||||+|.+.++|.+|+..++| .|+|+.|+|.|+
T Consensus        21 ~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a   93 (261)
T 3sde_A           21 QRCRLFVGNLPTD-ITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFA   93 (261)
T ss_dssp             GGGEEEEESCCTT-CCHHHHHHHTGGGCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHhcCCEEEEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeec
Confidence            3689999999995 99999999999999999999999999999999999999999999999 799999999885

>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=99.74  E-value=3.3e-17  Score=154.19  Aligned_cols=59  Identities=25%  Similarity=0.379  Sum_probs=54.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC--------CCeEEEEeCCHHHHHHHHHcCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--------SERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d--------kg~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+++        ++||||+|.+.++|.+|++.+++
T Consensus         3 ~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~   69 (175)
T 3nmr_A            3 AIKMFVGQVPRT-WSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHN   69 (175)
T ss_dssp             CEEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             ceEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcC
Confidence            579999999995 999999999999999999999864        36999999999999999999987

>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=99.74  E-value=3.7e-17  Score=154.78  Aligned_cols=73  Identities=21%  Similarity=0.176  Sum_probs=62.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEE-----EEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVV-----DIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~-----~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|..||.|.     +...-..++||||+|.+.++|.+|++ +++ .|+|+.|+|.|+
T Consensus        11 ~~~~~l~V~nLp~~-~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~v~~~   88 (175)
T 1fje_B           11 TTPFNLFIGNLNPN-KSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   88 (175)
T ss_dssp             SSSEEEEEECCCTT-SCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECC
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHh-cCCCEeCCeEEEEecC
Confidence            44789999999995 99999999999998644     33444467899999999999999995 998 899999999987


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      .
T Consensus        89 ~   89 (175)
T 1fje_B           89 K   89 (175)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.65  E-value=3.2e-16  Score=138.67  Aligned_cols=77  Identities=19%  Similarity=0.285  Sum_probs=71.5

Q ss_pred             CCCEEEEeCCCC-CCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPL-KSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~-d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~~  250 (634)
                      +.++|||+|||+ + +++++|+++|++||.|.+|.|+++++||||+|.+.++|..|++.|++   .|+||+|+|.|++..
T Consensus        14 p~~~l~V~nLp~~~-~te~dL~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   92 (102)
T 1x4d_A           14 TRRVVHIMDFQRGK-NLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   92 (102)
T ss_dssp             CCCEEEEESCCCSS-SHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             CCCEEEEeCCCCCc-CCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCCC
Confidence            468999999999 8 99999999999999999999999999999999999999999999885   499999999999854


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        93 ~~   94 (102)
T 1x4d_A           93 KR   94 (102)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>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=99.64  E-value=3.3e-16  Score=137.12  Aligned_cols=73  Identities=25%  Similarity=0.365  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|++++      |||||+|.+.++|.+|++.|+| .|+||.|+|.||+
T Consensus        19 gt~lfV~nLp~~-~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~Ak   97 (99)
T 4fxv_A           19 GTNLIVNYLPQN-MTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR   97 (99)
T ss_dssp             CSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            579999999995 9999999999999999999999865      5999999999999999999999 8999999999997


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      |
T Consensus        98 P   98 (99)
T 4fxv_A           98 P   98 (99)
T ss_dssp             B
T ss_pred             C
Confidence            5

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.64  E-value=1.8e-16  Score=146.54  Aligned_cols=119  Identities=24%  Similarity=0.403  Sum_probs=73.1

Q ss_pred             CceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHH
Q 048615          115 NSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREA  193 (634)
Q Consensus       115 ~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~  193 (634)
                      .-|.|.+|.+...+ .||..|+|....|+.- ..+..+                  .+.....++|||+|||++ +++++
T Consensus         4 ~~~~~~~~~~~~~~~~a~~~~~g~~~~g~~~-~~~~~~------------------~~~~~~~~~l~V~nLp~~-~te~~   63 (135)
T 2lea_A            4 SHHHHHHSSGLVPRGSHMASMTGGQQMGRGS-MSYGRP------------------PPDVEGMTSLKVDNLTYR-TSPDT   63 (135)
T ss_dssp             --------------------------------CCSCCS------------------CSSGGGCCCEEEECCCSS-CHHHH
T ss_pred             cccccccccCCCchhhhhhhccCCCCCCCCC-CCcCCC------------------CCCCCCCCEEEEeCCCCC-CCHHH
Confidence            34677888888888 9999999877666541 111110                  011223689999999995 99999


Q ss_pred             HHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCCC
Q 048615          194 LLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSIP  253 (634)
Q Consensus       194 L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~~  253 (634)
                      |+++|++||.|..|.|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++...+
T Consensus        64 L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~~~~  130 (135)
T 2lea_A           64 LRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRPP  130 (135)
T ss_dssp             HHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCCCCC
T ss_pred             HHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCCC
Confidence            99999999999999998763      6999999999999999999999 899999999999866544

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=2.5e-16  Score=140.06  Aligned_cols=78  Identities=17%  Similarity=0.342  Sum_probs=71.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD--A-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~IkV~wak~~  250 (634)
                      .+.++|||+|||++ +++++|+++|++||.|.+|+|+++++||||+|.+.++|.+|++.++  + .|+||+|+|.|+++.
T Consensus        14 ~~~~~LfV~nLp~~-vte~dL~~lF~~fG~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~   92 (105)
T 1sjq_A           14 VPSRVIHIRKLPID-VTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHK   92 (105)
T ss_dssp             CCCCEEEECSCCTT-SCHHHHHHHHHHHCCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCC
Confidence            44689999999996 9999999999999999999999999999999999999999999775  3 699999999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        93 ~~   94 (105)
T 1sjq_A           93 EL   94 (105)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=8.2e-16  Score=131.22  Aligned_cols=78  Identities=21%  Similarity=0.360  Sum_probs=71.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+  ++||||+|.+.++|.+|+..+++ .|+|+.|+|.|+++...
T Consensus         6 ~~~~~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            6 SGMVKLFIGNLPRE-ATEQEIRSLFEQYGKVLECDII--KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSK   82 (90)
T ss_dssp             SCCEEEEEESCCSS-CCHHHHHHHHHTSSCEEEEEEE--TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSCCCC
T ss_pred             CCCeEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEE--CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCCCCC
Confidence            44689999999995 9999999999999999999998  78999999999999999999999 89999999999987655


Q ss_pred             CC
Q 048615          253 PD  254 (634)
Q Consensus       253 ~~  254 (634)
                      ..
T Consensus        83 ~~   84 (90)
T 2dnq_A           83 AS   84 (90)
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=99.63  E-value=3.5e-16  Score=148.87  Aligned_cols=131  Identities=17%  Similarity=0.251  Sum_probs=71.8

Q ss_pred             EEcCCHHHH-HHHhccCCceeC--CEEEEEccCcccCCCCcccccc--ccc-cccCCCCCCCCCEEEEeCCCCCCCCHHH
Q 048615          120 LENETKEDR-EALPSLQGSYRR--GKRIIEGDAIQKNMDPSTKAQN--DHM-RNIRKPSQKALRTLFVNNVPLKSNRREA  193 (634)
Q Consensus       120 VeF~~~e~A-~Ai~~mnG~~l~--GR~I~V~~a~~k~~~~~~~~~~--d~~-~~~~~~s~~~~~tLfVgnLp~d~~te~~  193 (634)
                      ++|++.++| .|+..|++....  ||.+++.+......... ....  ... ....+......++|||+|||+. +++++
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~~~~~-~~~~~s~~~~~~~~~~~~~~~~~l~V~nLp~~-~t~~~   88 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSY-ERVRNEDDDELEPGPQRSVEGWILFVTSIHEE-AQEDE   88 (165)
T ss_dssp             --------------------------------------------------------CCCCC-CEEEEEESCCTT-CCHHH
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCccccccccCc-cccccCCCCCCCCCCCCCCCCCEEEEeCCCCC-CCHHH
Confidence            789999999 999999997765  66666665332111000 0000  000 1111222345789999999995 99999


Q ss_pred             HHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          194 LLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       194 L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      |+.+|++||.|..|.|+.+      ++||||+|.+.++|.+||..|+| .|+|+.|+|.|+++...
T Consensus        89 L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  154 (165)
T 1rk8_A           89 IQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGP  154 (165)
T ss_dssp             HHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEECC-
T ss_pred             HHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCCC
Confidence            9999999999999999987      37999999999999999999999 79999999999976543

>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=99.63  E-value=1.5e-15  Score=134.02  Aligned_cols=78  Identities=18%  Similarity=0.306  Sum_probs=71.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD--A-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~IkV~wak~~  250 (634)
                      ++.++|||+|||++ +++++|+.+|++||.|.+|.|+++++||||+|.+.++|.+|++.++  + .|+||+|+|.|++..
T Consensus        13 ~p~~~l~V~nLp~~-~te~~L~~~F~~fG~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   91 (101)
T 2cq1_A           13 APSRVLHIRKLPGE-VTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   91 (101)
T ss_dssp             SCCSEEEEESCCTT-CCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCcc
Confidence            44689999999996 9999999999999999999999999999999999999999999774  4 699999999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        92 ~~   93 (101)
T 2cq1_A           92 EL   93 (101)
T ss_dssp             SC
T ss_pred             cC
Confidence            54

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.63  E-value=1.6e-15  Score=130.23  Aligned_cols=79  Identities=20%  Similarity=0.303  Sum_probs=72.0

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+|++.|++ .|+|+.|+|.|+
T Consensus         4 ~~~~l~v~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A            4 GSSGLYVGSLHFN-ITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             CCcEEEEeCCCCC-CCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            3689999999995 9999999999999999999998874      6999999999999999999999 899999999999


Q ss_pred             cCCCCCC
Q 048615          248 NRDSIPD  254 (634)
Q Consensus       248 k~~~~~~  254 (634)
                      ++...++
T Consensus        83 ~~~~~~~   89 (95)
T 2dnz_A           83 TERLDGG   89 (95)
T ss_dssp             SCCCCCC
T ss_pred             ccccCCC
Confidence            8665543

>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=99.62  E-value=1.9e-15  Score=133.44  Aligned_cols=84  Identities=21%  Similarity=0.307  Sum_probs=74.6

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ....++|||+|||++ +++++|+++|++||.|..|.|..+   ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|++
T Consensus        19 ~~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPD-IRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             CCCSSEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            345789999999995 999999999999999999999876   46999999999999999999999 8999999999998


Q ss_pred             CCCCCCCCC
Q 048615          249 RDSIPDDGI  257 (634)
Q Consensus       249 ~~~~~~~g~  257 (634)
                      +.+.+..+.
T Consensus        98 ~~~~~~~~~  106 (109)
T 1x4a_A           98 SGRGTGSGP  106 (109)
T ss_dssp             CCCCCCCCS
T ss_pred             cCCCCCCCC
Confidence            776554333

>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=99.62  E-value=3.5e-15  Score=130.34  Aligned_cols=79  Identities=27%  Similarity=0.425  Sum_probs=72.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+    ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|++
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           13 STPKRLHVSNIPFR-FRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             CCCCEEEEESCCTT-CCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            44689999999995 999999999999999999999987    57999999999999999999999 8999999999998


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      +....
T Consensus        92 ~~~~~   96 (103)
T 2cq3_A           92 ARVMT   96 (103)
T ss_dssp             SSCCC
T ss_pred             cCCCC
Confidence            65543

>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=99.62  E-value=2.9e-15  Score=129.72  Aligned_cols=79  Identities=25%  Similarity=0.362  Sum_probs=72.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus         6 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   84 (99)
T 1whw_A            6 SGSGRLFVRNLSYT-SSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLP   84 (99)
T ss_dssp             CSCEEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            34689999999995 9999999999999999999998875      7999999999999999999999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        85 a~~~~~~   91 (99)
T 1whw_A           85 STIKKEA   91 (99)
T ss_dssp             CCCCSTT
T ss_pred             cCCCccc
Confidence            9876543

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.62  E-value=2e-15  Score=132.51  Aligned_cols=79  Identities=22%  Similarity=0.461  Sum_probs=72.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcC-CC-ccCCeEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSP-DA-VMGNRFIKL  244 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~l-ng-~l~gR~IkV  244 (634)
                      ...++|||+|||+. +++++|+++|++||.|..|+|+.+       ++||||+|.+.++|.+|+..| ++ .|+|+.|+|
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v   91 (107)
T 2cph_A           13 QTTSKILVRNIPFQ-ANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   91 (107)
T ss_dssp             SCCCCEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCc-CCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEE
Confidence            45789999999995 999999999999999999999887       579999999999999999999 88 899999999


Q ss_pred             EeecCCCCC
Q 048615          245 WWANRDSIP  253 (634)
Q Consensus       245 ~wak~~~~~  253 (634)
                      .|+++....
T Consensus        92 ~~a~~~~~~  100 (107)
T 2cph_A           92 EWADSEVTV  100 (107)
T ss_dssp             EECCCCCCC
T ss_pred             EeCCCCCCC
Confidence            999876544

>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=99.62  E-value=1.5e-15  Score=131.87  Aligned_cols=78  Identities=22%  Similarity=0.377  Sum_probs=72.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|+|.++++||||+|.+.++|.+|++.|++ .|+|+.|+|.|+++...
T Consensus        13 ~~~~~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           13 TQRSRLFVGNLPPD-ITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSAS   91 (99)
T ss_dssp             CCTTEEEEESCCTT-CCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCSC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHhhcCCeEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCCCCC
Confidence            34689999999995 99999999999999999999999999999999999999999999999 89999999999986554

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.62  E-value=2e-15  Score=129.38  Aligned_cols=78  Identities=22%  Similarity=0.336  Sum_probs=71.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+++  ||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++...
T Consensus         8 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~v~~v~~~~~--~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   84 (92)
T 2dgt_A            8 KASTKLHVGNISPT-CTNQELRAKFEEYGPVIECDIVKD--YAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR   84 (92)
T ss_dssp             CSSEEEEEESCCSS-CCHHHHHHHHHTTSCCCEEEECSS--EEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSCCCS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEECC--EEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccCCCC
Confidence            44689999999995 999999999999999999998854  999999999999999999999 89999999999986655


Q ss_pred             CC
Q 048615          253 PD  254 (634)
Q Consensus       253 ~~  254 (634)
                      ..
T Consensus        85 ~~   86 (92)
T 2dgt_A           85 TA   86 (92)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.62  E-value=1.9e-15  Score=133.97  Aligned_cols=78  Identities=13%  Similarity=0.201  Sum_probs=71.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~~  250 (634)
                      ++.++|||+|||++ +++++|+++|++||.|.+|.|+++++||||+|.+.++|.+|++.+++   .|+||.|+|.|++..
T Consensus        13 ~p~~~l~V~nLp~~-~te~~L~~~F~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~   91 (104)
T 1wex_A           13 SVSPVVHVRGLCES-VVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSK   91 (104)
T ss_dssp             CCCSEEEEESCCSS-CCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCc
Confidence            45689999999996 99999999999999999999999999999999999999999998865   499999999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        92 ~~   93 (104)
T 1wex_A           92 RI   93 (104)
T ss_dssp             SC
T ss_pred             cc
Confidence            54

>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=99.62  E-value=1.5e-15  Score=127.67  Aligned_cols=75  Identities=28%  Similarity=0.519  Sum_probs=70.5

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcC-CC-ccCCeEEEEEeec
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSP-DA-VMGNRFIKLWWAN  248 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~l-ng-~l~gR~IkV~wak  248 (634)
                      ....++|||+|||++ +++++|+++|++||.|..|+++++++||||+|.+.++|.+|+..| ++ .++|+.|+|.|++
T Consensus         9 ~~~~~~l~V~~l~~~-~t~~~l~~~f~~~G~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~ak   85 (85)
T 2ytc_A            9 DKTITTLYVGGLGDT-ITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGR   85 (85)
T ss_dssp             CSSCCCEEEECCTTT-SCHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEECC
T ss_pred             CCCccEEEEcCCCCC-CCHHHHHHHHHhCCCEeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEecC
Confidence            345789999999995 999999999999999999999999999999999999999999999 88 8999999999985

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.61  E-value=1.4e-15  Score=130.94  Aligned_cols=79  Identities=20%  Similarity=0.352  Sum_probs=72.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEE-EEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDI-YIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v-~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +.++|||+|||++ +++++|+.+|++||.|..| +|+.+      ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus         4 ~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   82 (96)
T 1x5t_A            4 GSSGIFIGNLDPE-IDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   82 (96)
T ss_dssp             CCCEEEEECCCTT-CCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3689999999995 9999999999999999999 99886      47999999999999999999999 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++....+
T Consensus        83 a~~~~~~~   90 (96)
T 1x5t_A           83 AFKKDSKG   90 (96)
T ss_dssp             SCCCCCCC
T ss_pred             ecccCCCC
Confidence            98665543

>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=99.61  E-value=3.2e-15  Score=130.85  Aligned_cols=80  Identities=24%  Similarity=0.266  Sum_probs=73.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           13 NQDATVYVGGLDEK-VSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CTTTEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            45789999999995 9999999999999999999998865      5999999999999999999999 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++.....
T Consensus        92 a~~~~~~~   99 (105)
T 1x5u_A           92 ASAHNKNL   99 (105)
T ss_dssp             TTTTSCCC
T ss_pred             CCCCCcCC
Confidence            98766543

>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=99.61  E-value=1.7e-15  Score=133.97  Aligned_cols=78  Identities=19%  Similarity=0.378  Sum_probs=73.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|+|+.+++||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++...
T Consensus        23 ~~~~~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           23 PKNCTVYCGGIASG-LTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPD  101 (109)
T ss_dssp             SSCCEEEEECCSSC-CCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCCS
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCCCCC
Confidence            34689999999995 99999999999999999999999999999999999999999999999 89999999999986544

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.61  E-value=1.5e-15  Score=133.92  Aligned_cols=77  Identities=13%  Similarity=0.150  Sum_probs=71.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~~  250 (634)
                      +++++|||+|||++ +++++|+++|++||.|.+|.|++.++||||+|.+.++|.+|++.+++   .|+||+|+|.|++.+
T Consensus        19 ~ps~~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           19 PASPVVHIRGLIDG-VVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQ   97 (100)
T ss_dssp             CCCSEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSCS
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHhccCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecccc
Confidence            45689999999996 99999999999999999999999999999999999999999999987   389999999999854


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        98 ~   98 (100)
T 3r27_A           98 K   98 (100)
T ss_dssp             C
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=99.61  E-value=4.1e-15  Score=129.87  Aligned_cols=79  Identities=24%  Similarity=0.344  Sum_probs=72.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+    ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|++
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2cqi_A           13 GQPRTLYVGNLSRD-VTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   91 (103)
T ss_dssp             CCCCEEEEESCCTT-CCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCCEEEEeCCCcc-CCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECC
Confidence            44689999999995 999999999999999999999985    47999999999999999999999 8999999999998


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      +....
T Consensus        92 ~~~~~   96 (103)
T 2cqi_A           92 TPSSQ   96 (103)
T ss_dssp             CTTCC
T ss_pred             CCccc
Confidence            65543

>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=99.61  E-value=2.1e-15  Score=130.65  Aligned_cols=77  Identities=22%  Similarity=0.255  Sum_probs=71.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHH----HhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALL----SHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~----~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ..++|||+|||++ +++++|+    ++|++||.|.+|+|+.+   ++||||+|.+.++|.+|++.|+| .|+||.|+|.|
T Consensus         8 ~~~~l~V~nL~~~-~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   86 (96)
T 2dgx_A            8 NGADVQVSNIDYR-LSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL   86 (96)
T ss_dssp             SCEEEEEESCCTT-SCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            3689999999995 9999999    99999999999999987   68999999999999999999999 79999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus        87 a~~~~~   92 (96)
T 2dgx_A           87 ATGASG   92 (96)
T ss_dssp             CCCSSC
T ss_pred             cCCCCC
Confidence            986544

>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=99.61  E-value=2.1e-15  Score=130.47  Aligned_cols=77  Identities=21%  Similarity=0.333  Sum_probs=72.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccC--CeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMG--NRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~--gR~IkV~wak~~  250 (634)
                      .+.++|||+|||++ +++++|+++|++||.|.+|.+..+++||||+|.+.++|.+|++.|++ .|+  |+.|+|.|+++.
T Consensus        15 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~~   93 (97)
T 1why_A           15 NPTTRLWVGGLGPN-TSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG   93 (97)
T ss_dssp             CCCSCEEEECCCSS-CCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCCC
Confidence            34689999999995 99999999999999999999999999999999999999999999999 788  999999999865


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        94 ~   94 (97)
T 1why_A           94 P   94 (97)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.61  E-value=2.8e-15  Score=130.95  Aligned_cols=79  Identities=23%  Similarity=0.304  Sum_probs=72.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+.+    ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|++
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           13 YQVVNLYVKNLDDG-IDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             SSCCCEEEECCCTT-CCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            34689999999995 999999999999999999999976    57999999999999999999999 8999999999998


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      +...+
T Consensus        92 ~~~~~   96 (103)
T 2d9p_A           92 RKEER   96 (103)
T ss_dssp             SCCCC
T ss_pred             ccccC
Confidence            76544

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.60  E-value=5.5e-15  Score=128.12  Aligned_cols=77  Identities=17%  Similarity=0.304  Sum_probs=70.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|++ +++ .|+|+.|+|.|
T Consensus         8 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~   85 (99)
T 2dgs_A            8 SKSNKIFVGGIPHN-CGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKR   85 (99)
T ss_dssp             SSCCEEEEESCCSS-CCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEE
Confidence            44689999999995 999999999999999999999876      4799999999999999999 888 89999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus        86 a~~~~~   91 (99)
T 2dgs_A           86 AEPRDS   91 (99)
T ss_dssp             CCCCCC
T ss_pred             CCCCcc
Confidence            986554

>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=99.59  E-value=1e-14  Score=128.91  Aligned_cols=78  Identities=17%  Similarity=0.287  Sum_probs=72.1

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCC-----eEEEEEe
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGN-----RFIKLWW  246 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~g-----R~IkV~w  246 (634)
                      ....++|||+|||++ +++++|+++|++||.|..|.|+.+ +||||+|.+.++|.+||+.|++ .|+|     +.|+|.|
T Consensus        12 ~~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~   89 (108)
T 1x4c_A           12 RRSENRVVVSGLPPS-GSWQDLKDHMREAGDVCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKV   89 (108)
T ss_dssp             CSCCCEEEEESCCSS-CCHHHHHHHHGGGSCEEEEEEETT-TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEE
T ss_pred             CCCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEeEEEEecC-CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEe
Confidence            345789999999995 999999999999999999999998 9999999999999999999999 7999     9999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus        90 a~~~~~   95 (108)
T 1x4c_A           90 DGPRSP   95 (108)
T ss_dssp             SSCCSC
T ss_pred             CCCCCC
Confidence            986543

>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=99.59  E-value=2e-15  Score=137.27  Aligned_cols=78  Identities=17%  Similarity=0.345  Sum_probs=71.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~~  250 (634)
                      ++.++|||+|||++ +++++|+++|++||.|.+|+|+++++||||+|.+.++|.+|++.+++   .|+||+|+|.|+++.
T Consensus        29 ~ps~~LfVgNLp~~-vte~dL~~lF~~fG~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k  107 (119)
T 2ad9_A           29 VPSRVIHIRKLPID-VTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHK  107 (119)
T ss_dssp             SCCSEEEEESCCTT-CCHHHHHHHHTTTSCCCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCC
Confidence            44689999999996 99999999999999999999999999999999999999999998874   699999999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus       108 ~~  109 (119)
T 2ad9_A          108 EL  109 (119)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.59  E-value=3.1e-15  Score=130.23  Aligned_cols=79  Identities=20%  Similarity=0.360  Sum_probs=72.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        10 ~~~~~l~v~nLp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   88 (102)
T 1x5s_A           10 SDEGKLFVGGLSFD-TNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   88 (102)
T ss_dssp             CCCSEEEEESCCTT-CCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            34689999999995 999999999999999999999886      36999999999999999999999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        89 a~~~~~~   95 (102)
T 1x5s_A           89 AGKSSDN   95 (102)
T ss_dssp             EECCCCC
T ss_pred             CCCCCCC
Confidence            9876554

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.59  E-value=3.2e-15  Score=130.54  Aligned_cols=79  Identities=29%  Similarity=0.446  Sum_probs=72.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+.+      ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        11 ~~~~~l~V~nLp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   89 (103)
T 2dnm_A           11 DGMITLKVDNLTYR-TSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV   89 (103)
T ss_dssp             SCCCEEEEESCCTT-CCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEE
T ss_pred             CCCeEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            44689999999995 999999999999999999999876      36999999999999999999999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        90 a~~~~~~   96 (103)
T 2dnm_A           90 ARYGRRD   96 (103)
T ss_dssp             CSSCCSC
T ss_pred             CCcCCCC
Confidence            9866543

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.59  E-value=3.2e-15  Score=130.19  Aligned_cols=79  Identities=30%  Similarity=0.441  Sum_probs=72.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        10 ~~~~~l~V~nLp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2cqb_A           10 TTKRVLYVGGLAEE-VDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   88 (102)
T ss_dssp             CCCSCEEEESCCSS-CCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEe
Confidence            34689999999995 999999999999999999999876      47999999999999999999999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        89 a~~~~~~   95 (102)
T 2cqb_A           89 AKPMRIK   95 (102)
T ss_dssp             CCCCCCC
T ss_pred             CCCCCCC
Confidence            9866543

>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=2.2e-15  Score=135.02  Aligned_cols=75  Identities=20%  Similarity=0.363  Sum_probs=69.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|++++    +||||+|.+.++|.+|++.|++ .|+||.|+|.|+++.
T Consensus         5 ~~~lfV~nLp~~-~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~   83 (115)
T 4f25_A            5 SGNIFIKNLDKS-IDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   83 (115)
T ss_dssp             CCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCC
T ss_pred             CCEEEECCCCCC-CCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCc
Confidence            579999999995 9999999999999999999999874    6999999999999999999999 899999999999754


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        84 ~   84 (115)
T 4f25_A           84 K   84 (115)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.59  E-value=1.6e-15  Score=130.60  Aligned_cols=77  Identities=13%  Similarity=0.268  Sum_probs=68.9

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCC-CEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC--ccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFG-EVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA--VMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG-~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng--~l~gR~IkV~wa  247 (634)
                      .+|||+|||++ +++++|+++|++|| .|.+|+|++++      |||||+|.+.++|.+|++.+++  .|+||.|+|.|+
T Consensus         2 ~~i~v~nLp~~-~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A            2 NIVMLRMLPQA-ATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             CEEEEETCCSS-CCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CEEEEeCCCCC-CCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            58999999995 99999999999999 89999998763      6999999999999999998854  699999999999


Q ss_pred             cCCCCCC
Q 048615          248 NRDSIPD  254 (634)
Q Consensus       248 k~~~~~~  254 (634)
                      ++.....
T Consensus        81 ~~~~~~~   87 (91)
T 2lxi_A           81 DPKPKIN   87 (91)
T ss_dssp             CSCCCCS
T ss_pred             CCCCCCC
Confidence            8765543

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

Probab=99.58  E-value=3.3e-15  Score=128.42  Aligned_cols=73  Identities=22%  Similarity=0.206  Sum_probs=69.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ....|||+||++. +++++|+++|.+||+|.++++...+|||||+|.+.++|.+|++.||+ .++||.|+|.+|.
T Consensus         6 ~~~wL~VgNL~~~-~te~~L~~lF~q~G~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            6 GSSWLLLKNLTAQ-IDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CCCEEEEECCCTT-CCCHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             ccceEEEeCCCcc-CCHHHHHHHHHhhCCEEEEEEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            3579999999996 99999999999999999999999999999999999999999999999 8999999999995

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.58  E-value=4.9e-15  Score=126.39  Aligned_cols=76  Identities=22%  Similarity=0.325  Sum_probs=69.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|++  +||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++...
T Consensus         7 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~~~~~~--~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   83 (90)
T 2dnp_A            7 GNTWKIFVGNVSAA-CTSQELRSLFERRGRVIECDVVK--DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQK   83 (90)
T ss_dssp             CCSCCEEEESCCTT-CCHHHHHHHHHHHSCEEEEEECS--SCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHcCCCEEEEEEEC--CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCCCCC
Confidence            34689999999995 99999999999999999999985  4999999999999999999999 89999999999986644

>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=99.58  E-value=7.5e-15  Score=131.96  Aligned_cols=78  Identities=21%  Similarity=0.327  Sum_probs=72.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|||+|||++ +++++|+++|++||.|..|.|+.++     +||||+|.+.++|.+|++.|+| .|+|+.|+|.|+++
T Consensus         7 ~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   85 (116)
T 2fy1_A            7 PGKLFIGGLNRE-TNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKK   85 (116)
T ss_dssp             CCEEEEECCTTT-CCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCC
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            579999999995 9999999999999999999999875     8999999999999999999999 89999999999986


Q ss_pred             CCCCC
Q 048615          250 DSIPD  254 (634)
Q Consensus       250 ~~~~~  254 (634)
                      .....
T Consensus        86 ~~~~~   90 (116)
T 2fy1_A           86 PSFQS   90 (116)
T ss_dssp             SSCSS
T ss_pred             CCCCC
Confidence            65443

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.58  E-value=5.7e-15  Score=127.66  Aligned_cols=78  Identities=24%  Similarity=0.390  Sum_probs=70.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      +.++|||+|||++ +++++|+++|++||.|..|+|+.+         ++||||+|.+.++|.+|+..|++ .|+|+.|+|
T Consensus         4 ~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (98)
T 2cpf_A            4 GSSGLFIKNLNFS-TTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEV   82 (98)
T ss_dssp             CCCCEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            3689999999995 999999999999999999999863         35999999999999999999999 899999999


Q ss_pred             EeecCCCCC
Q 048615          245 WWANRDSIP  253 (634)
Q Consensus       245 ~wak~~~~~  253 (634)
                      .|+++...+
T Consensus        83 ~~a~~~~~~   91 (98)
T 2cpf_A           83 RISERATKP   91 (98)
T ss_dssp             ECSSCSSCC
T ss_pred             EEccCCCCC
Confidence            999866544

>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=99.58  E-value=2.2e-15  Score=135.53  Aligned_cols=78  Identities=19%  Similarity=0.274  Sum_probs=71.5

Q ss_pred             CCCCEEEEeCCCCCC-CCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEEEeecC
Q 048615          174 KALRTLFVNNVPLKS-NRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA---VMGNRFIKLWWANR  249 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~-~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV~wak~  249 (634)
                      .+.++|||+|||+ . +++++|+++|++||.|.+|+|++.++||||+|.+.++|.+|++.|++   .|+||.|+|.|++.
T Consensus        23 ~p~~~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           23 ELGRVIHLSNLPH-SGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK  101 (112)
T ss_dssp             CCCCEEEEESCCC-SSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CCCCEEEEeCCCC-ccCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcc
Confidence            4578999999999 5 89999999999999999999999999999999999999999998864   59999999999976


Q ss_pred             CCC
Q 048615          250 DSI  252 (634)
Q Consensus       250 ~~~  252 (634)
                      ...
T Consensus       102 ~~~  104 (112)
T 1x4f_A          102 YKK  104 (112)
T ss_dssp             CSS
T ss_pred             ccc
Confidence            554

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.58  E-value=3e-15  Score=127.78  Aligned_cols=79  Identities=24%  Similarity=0.320  Sum_probs=72.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+    ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|++
T Consensus         6 ~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   84 (92)
T 2dgv_A            6 SGACQIFVRNLPFD-FTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDR   84 (92)
T ss_dssp             SSCCEEEECSCCTT-CCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECS
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            34689999999995 999999999999999999999875    36999999999999999999999 8999999999998


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      +...+
T Consensus        85 ~~~~~   89 (92)
T 2dgv_A           85 NASGP   89 (92)
T ss_dssp             CCSSC
T ss_pred             CCCCC
Confidence            76554

>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=99.58  E-value=9.5e-15  Score=128.94  Aligned_cols=78  Identities=26%  Similarity=0.378  Sum_probs=71.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCC------C-ccCCe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPD------A-VMGNR  240 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~ln------g-~l~gR  240 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|+|+.+      ++||||+|.+.++|.+|+..++      + .|+|+
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~   91 (111)
T 1x4h_A           13 TEGKTVFIRNLSFD-SEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   91 (111)
T ss_dssp             CCCCCEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCE
Confidence            44689999999995 999999999999999999999876      4799999999999999999998      8 79999


Q ss_pred             EEEEEeecCCCC
Q 048615          241 FIKLWWANRDSI  252 (634)
Q Consensus       241 ~IkV~wak~~~~  252 (634)
                      .|+|.|+++...
T Consensus        92 ~l~v~~a~~~~~  103 (111)
T 1x4h_A           92 QLKVDLAVTRDE  103 (111)
T ss_dssp             EEEEECCCCCCC
T ss_pred             EEEEEECCCCcc
Confidence            999999986544

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.58  E-value=9.8e-15  Score=126.77  Aligned_cols=77  Identities=22%  Similarity=0.360  Sum_probs=71.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++     +||||+|.+.++|.+|++.|++ .|+|+.|+|.|+
T Consensus        15 ~~~~~l~v~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   93 (100)
T 2do4_A           15 LEKHKLFISGLPFS-CTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS   93 (100)
T ss_dssp             CCCSCEEEESCCTT-CCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            44689999999995 9999999999999999999999875     7999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus        94 ~~~~   97 (100)
T 2do4_A           94 NSGP   97 (100)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8654

>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=99.57  E-value=4.6e-15  Score=124.58  Aligned_cols=74  Identities=31%  Similarity=0.474  Sum_probs=68.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .+.++|||+|||++ +++++|+++|++||.|..|.|+.+      ++||||+|.+.++|.+|++.++| .++|+.|+|.|
T Consensus         5 ~~~~~l~V~nl~~~-~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   83 (85)
T 3mdf_A            5 TTKRVLYVGGLAEE-VDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   83 (85)
T ss_dssp             CCSSEEEEECCCTT-CCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            34689999999995 999999999999999999999775      47999999999999999999999 89999999999


Q ss_pred             ec
Q 048615          247 AN  248 (634)
Q Consensus       247 ak  248 (634)
                      ++
T Consensus        84 ak   85 (85)
T 3mdf_A           84 AK   85 (85)
T ss_dssp             CC
T ss_pred             cC
Confidence            85

>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=99.57  E-value=1.2e-14  Score=127.26  Aligned_cols=77  Identities=19%  Similarity=0.337  Sum_probs=69.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      .+.++|||+|||++ +++++|+++|++|| |..|+|+.+       ++||||+|.+.++|.+|+ .+++ .|+|+.|+|.
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~   89 (104)
T 1wi8_A           13 SPPYTAFLGNLPYD-VTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVD   89 (104)
T ss_dssp             SSCEEEEEESCCSS-CCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCc-CCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEE
Confidence            34689999999995 99999999999999 999999876       469999999999999999 9999 8999999999


Q ss_pred             eecCCCCC
Q 048615          246 WANRDSIP  253 (634)
Q Consensus       246 wak~~~~~  253 (634)
                      |+++....
T Consensus        90 ~a~~~~~~   97 (104)
T 1wi8_A           90 VADQAQDK   97 (104)
T ss_dssp             ECCCCCCC
T ss_pred             EccCCCCC
Confidence            99866543

>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=99.57  E-value=5.1e-15  Score=131.99  Aligned_cols=78  Identities=23%  Similarity=0.349  Sum_probs=71.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +..++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        23 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  101 (115)
T 2cpz_A           23 PEGANLFIYHLPQE-FGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL  101 (115)
T ss_dssp             STTCCEEEESCCSS-CCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            44689999999995 9999999999999999999999875      5999999999999999999999 89999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus       102 a~~~~~  107 (115)
T 2cpz_A          102 KRSKND  107 (115)
T ss_dssp             CCCSCC
T ss_pred             cCCCCc
Confidence            986554

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.57  E-value=2.6e-15  Score=130.64  Aligned_cols=75  Identities=19%  Similarity=0.386  Sum_probs=71.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ...++|||+|||++ +++++|+.+|++||.|.+|+|.+.++||||+|.+.++|.+|+..++| .|+|+.|+|.|+++
T Consensus        25 ~~~~~l~V~nlp~~-~~~~~l~~~f~~~G~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  100 (101)
T 2la4_A           25 PRVTTAYIGNIPHF-ATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE  100 (101)
T ss_dssp             SSCCEEEEESCCTT-CCHHHHHHHHHTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCC
T ss_pred             CCCCEEEEcCCCcc-cCHHHHHHHHHhCCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccC
Confidence            34689999999995 99999999999999999999999999999999999999999999999 89999999999974

>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=99.57  E-value=5.8e-15  Score=123.41  Aligned_cols=73  Identities=22%  Similarity=0.404  Sum_probs=68.6

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ++|||+|||++ +++++|+++|++||.|..|.|+++      ++||||+|.+.++|.+|+..++| .++|+.|+|.|+++
T Consensus         2 ~~l~V~nlp~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   80 (83)
T 3md1_A            2 FNLFVGDLNVN-VDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK   80 (83)
T ss_dssp             EEEEEECCCTT-CCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             eEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCc
Confidence            58999999995 999999999999999999999987      46999999999999999999999 89999999999975


Q ss_pred             C
Q 048615          250 D  250 (634)
Q Consensus       250 ~  250 (634)
                      .
T Consensus        81 ~   81 (83)
T 3md1_A           81 L   81 (83)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.57  E-value=2e-14  Score=124.77  Aligned_cols=76  Identities=28%  Similarity=0.406  Sum_probs=69.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccC--CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKF--GEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~Fskf--G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ...++|||+|||++ +++++|+.+|++|  |.|..|.+.  ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++.
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~g~g~v~~~~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   89 (99)
T 2cpd_A           13 SSVKILYVRNLMLS-TSEEMIEKEFNNIKPGAVERVKKI--RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPV   89 (99)
T ss_dssp             SCCCEEEEESCCTT-CCHHHHHHHHHTTSTTCEEEEEEC--SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCC
T ss_pred             CCcCEEEEeCCCCC-CCHHHHHHHHHhcCCcceEEEEEe--CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCCC
Confidence            34689999999995 9999999999999  999998875  67999999999999999999999 899999999999866


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        90 ~~   91 (99)
T 2cpd_A           90 DK   91 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.57  E-value=1e-14  Score=127.66  Aligned_cols=77  Identities=27%  Similarity=0.337  Sum_probs=70.7

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCC---eEEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGN---RFIKLW  245 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~g---R~IkV~  245 (634)
                      ..++|||+|||++ +++++|+.+|++||.|..|+|+.+     ++||||+|.+.++|.+|++.|++ .+.|   +.|+|.
T Consensus        14 ~~~~l~v~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~   92 (105)
T 2dnh_A           14 RDRKLFVGMLNKQ-QSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVK   92 (105)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEE
Confidence            4689999999995 999999999999999999999987     57999999999999999999999 6777   999999


Q ss_pred             eecCCCC
Q 048615          246 WANRDSI  252 (634)
Q Consensus       246 wak~~~~  252 (634)
                      |+++...
T Consensus        93 ~a~~~~~   99 (105)
T 2dnh_A           93 FADTDKE   99 (105)
T ss_dssp             ESCSSCC
T ss_pred             ECccCcc
Confidence            9986554

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.57  E-value=1.4e-14  Score=124.17  Aligned_cols=74  Identities=26%  Similarity=0.393  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +..++|||+|||++ +++++|+++|++||.|..|.|+.+      ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        14 ~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           14 PSKSTVYVSNLPFS-LTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCTTSEEEESCCTT-SCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            45689999999995 999999999999999999999876      36999999999999999999999 89999999999


Q ss_pred             ec
Q 048615          247 AN  248 (634)
Q Consensus       247 ak  248 (634)
                      ++
T Consensus        93 ak   94 (94)
T 2e5h_A           93 AI   94 (94)
T ss_dssp             CC
T ss_pred             cC
Confidence            85

>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=99.57  E-value=4.2e-15  Score=132.59  Aligned_cols=75  Identities=20%  Similarity=0.310  Sum_probs=71.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      .++|||+|||++ +++++|+.+|++||.|..|.|++.++||||+|.+.++|.+|++.|+| .|+||.|+|.|++...
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 KTVILAKNLPAG-TLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCCc
Confidence            579999999996 99999999999999999999999999999999999999999999999 8999999999998543

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.57  E-value=1.8e-14  Score=125.82  Aligned_cols=78  Identities=24%  Similarity=0.427  Sum_probs=71.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           13 DDNATIRVTNLSED-TRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             SSSEEEEEESCCTT-CCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            34689999999995 9999999999999999999999874      5999999999999999999999 89999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus        92 a~~~~~   97 (103)
T 2cq0_A           92 AKPSTN   97 (103)
T ss_dssp             SSCCCC
T ss_pred             CCCCCC
Confidence            986654

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.57  E-value=2.9e-14  Score=123.43  Aligned_cols=76  Identities=22%  Similarity=0.341  Sum_probs=70.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|+  + +++++|+++|++||.|..|.|...++||||+|.+.++|.+|+..|++ .|+|+.|+|.|+++...
T Consensus        13 ~~~~~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           13 RKGNTLYVYGE--D-MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQPM   89 (97)
T ss_dssp             CCCSEEEEECS--S-CCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSCCC
T ss_pred             CCCCEEEEcCC--C-CCHHHHHHHHhhCCCEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCCC
Confidence            34689999995  4 89999999999999999999998899999999999999999999999 89999999999986544

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.56  E-value=7.6e-15  Score=131.07  Aligned_cols=75  Identities=20%  Similarity=0.217  Sum_probs=69.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++.||| .|+||.|+|.|+
T Consensus         5 p~~~lfV~nL~~~-~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a   83 (110)
T 3s8s_A            5 PLKEVTFARLNDN-VRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLD   83 (110)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCcEEEEECCCCC-CCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            4689999999995 9999999999999999999998864      5999999999999999999999 899999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      ...
T Consensus        84 ~~~   86 (110)
T 3s8s_A           84 IKG   86 (110)
T ss_dssp             STT
T ss_pred             CCC
Confidence            643

>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=99.56  E-value=4.3e-15  Score=131.56  Aligned_cols=76  Identities=21%  Similarity=0.356  Sum_probs=69.8

Q ss_pred             CCCEEEEeCCCCCC-CCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          175 ALRTLFVNNVPLKS-NRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       175 ~~~tLfVgnLp~d~-~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ..++|||+|||+ . +++++|+++|++||.|..|.|  .++||||+|.+.++|.+|++.|++ .|+|+.|+|.|+++.+.
T Consensus        26 ~~~~l~V~nl~~-~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~~  102 (110)
T 1wf1_A           26 INSRVFIGNLNT-ALVKKSDVETIFSKYGRVAGCSV--HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEPKP  102 (110)
T ss_dssp             CSSEEEECSCCC-SSCCHHHHHHHHGGGSCCSEEEE--ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCCCCS
T ss_pred             CCcEEEEeCCCc-ccCCHHHHHHHHHhCCCeEEEEE--eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCCCC
Confidence            358999999999 7 899999999999999999998  578999999999999999999999 89999999999986544


Q ss_pred             C
Q 048615          253 P  253 (634)
Q Consensus       253 ~  253 (634)
                      .
T Consensus       103 ~  103 (110)
T 1wf1_A          103 D  103 (110)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.56  E-value=7.9e-15  Score=126.57  Aligned_cols=75  Identities=20%  Similarity=0.503  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.+      ++||||+|.+.++|.+|++.++| .|+|+.|+|.|++
T Consensus         2 ~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A            2 SRVVYLGSIPYD-QTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CcEEEEECCCCC-CCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            579999999995 999999999999999999999887      47999999999999999999999 8999999999998


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        81 ~~~   83 (96)
T 2x1f_A           81 NSD   83 (96)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            543

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.56  E-value=2.5e-14  Score=127.35  Aligned_cols=79  Identities=24%  Similarity=0.392  Sum_probs=72.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   91 (115)
T 2dgo_A           13 SNHFHVFVGDLSPE-ITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNW   91 (115)
T ss_dssp             TTCEEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            44689999999995 9999999999999999999999874      6999999999999999999999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        92 a~~~~~~   98 (115)
T 2dgo_A           92 ATRKPPA   98 (115)
T ss_dssp             SSCCCCC
T ss_pred             ccCCCCC
Confidence            9865543

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.56  E-value=1e-14  Score=134.13  Aligned_cols=80  Identities=23%  Similarity=0.341  Sum_probs=72.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|.+|+|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        40 ~~~~~l~V~nLp~~-~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  118 (139)
T 1u6f_A           40 DVLRNLMVNYIPTT-VDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTTSEEEEESCSTT-CCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            45689999999995 9999999999999999999998763      5999999999999999999999 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++.....
T Consensus       119 a~~~~~~~  126 (139)
T 1u6f_A          119 AASGHQRP  126 (139)
T ss_dssp             SSCCCCCC
T ss_pred             CCCCCCCC
Confidence            98765543

>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=99.56  E-value=6.6e-15  Score=133.21  Aligned_cols=80  Identities=23%  Similarity=0.366  Sum_probs=72.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|+.+      ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        20 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   98 (126)
T 3ex7_B           20 VEGWILFVTGVHEE-ATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   98 (126)
T ss_dssp             SSSEEEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            34689999999995 999999999999999999999887      57999999999999999999999 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++...+.
T Consensus        99 a~~~~~~~  106 (126)
T 3ex7_B           99 CFVRGPPK  106 (126)
T ss_dssp             SEESSSCC
T ss_pred             ecCCCCCC
Confidence            98665543

>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=99.56  E-value=6.4e-15  Score=124.23  Aligned_cols=74  Identities=26%  Similarity=0.431  Sum_probs=68.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|.+|+|+.++      +||||+|.+.++|.+|++.+++ .++|+.|+|.|+
T Consensus         5 ~~~~l~v~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (87)
T 3bs9_A            5 SHFHVFVGDLSPE-ITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   83 (87)
T ss_dssp             -CEEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CceEEEEeCCCCC-CCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEec
Confidence            3589999999995 9999999999999999999999874      6999999999999999999999 899999999999


Q ss_pred             cC
Q 048615          248 NR  249 (634)
Q Consensus       248 k~  249 (634)
                      ++
T Consensus        84 ~~   85 (87)
T 3bs9_A           84 TR   85 (87)
T ss_dssp             C-
T ss_pred             CC
Confidence            74

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

Probab=99.56  E-value=4.3e-15  Score=128.51  Aligned_cols=78  Identities=22%  Similarity=0.416  Sum_probs=70.1

Q ss_pred             CCCCEEEEeCCCC-CCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          174 KALRTLFVNNVPL-KSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       174 ~~~~tLfVgnLp~-d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      ++.++|||+|||+ + +++++|+.+|++||.|..|.|.  ++||||+|.+.++|.+|+..|++ .++|+.|+|.|+++..
T Consensus         8 ~~~~~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            8 PPKSRLFIGNLPLKN-VSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNA   84 (96)
T ss_dssp             -CCEEEEEESSTTSC-CCHHHHHHHHTTTCCCCEEEEE--TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEECCC
T ss_pred             CCCCEEEEeCCCccc-CCHHHHHHHHHhcCCEEEEEEe--CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCcCC
Confidence            4468999999998 7 9999999999999999999986  78999999999999999999999 7999999999998765


Q ss_pred             CCC
Q 048615          252 IPD  254 (634)
Q Consensus       252 ~~~  254 (634)
                      .+.
T Consensus        85 ~~~   87 (96)
T 2kvi_A           85 RPQ   87 (96)
T ss_dssp             C--
T ss_pred             CCC
Confidence            543

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.56  E-value=1e-14  Score=129.45  Aligned_cols=79  Identities=20%  Similarity=0.193  Sum_probs=71.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEE--------EEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVV--------DIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMG  238 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~--------~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~  238 (634)
                      ...++|||+|||++ +++++|+++|++||.|.        .|+|+.+      ++||||+|.+.++|.+|+..|++ .|+
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   91 (113)
T 2cpe_A           13 SDNSAIYVQGLNDS-VTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ   91 (113)
T ss_dssp             CCCCEEEEECCCTT-CCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEcCCCCC-CCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccC
Confidence            34689999999995 99999999999999999        6999887      36999999999999999999999 899


Q ss_pred             CeEEEEEeecCCCCC
Q 048615          239 NRFIKLWWANRDSIP  253 (634)
Q Consensus       239 gR~IkV~wak~~~~~  253 (634)
                      |+.|+|.|+++....
T Consensus        92 g~~l~V~~a~~~~~~  106 (113)
T 2cpe_A           92 GSKLKVSLARKKPPM  106 (113)
T ss_dssp             TEECEEECSSCCCCS
T ss_pred             CCEEEEEECCCCCCC
Confidence            999999999866543

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.56  E-value=3.3e-14  Score=126.85  Aligned_cols=79  Identities=23%  Similarity=0.428  Sum_probs=72.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+..+++.|+|+.|+|.|+
T Consensus        15 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a   93 (116)
T 2cqd_A           15 TTFTKIFVGGLPYH-TTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLA   93 (116)
T ss_dssp             CSSSEEEEECCCSS-CCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCCcCCCEEEEEEEc
Confidence            45789999999995 9999999999999999999998864      5999999999999999999999999999999999


Q ss_pred             cCCCCC
Q 048615          248 NRDSIP  253 (634)
Q Consensus       248 k~~~~~  253 (634)
                      +....+
T Consensus        94 ~~~~~~   99 (116)
T 2cqd_A           94 YLGAKP   99 (116)
T ss_dssp             TTTCCC
T ss_pred             ccCCCc
Confidence            765544

>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=99.55  E-value=2.2e-14  Score=125.53  Aligned_cols=76  Identities=22%  Similarity=0.375  Sum_probs=69.7

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSIP  253 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~~  253 (634)
                      ..++|||+|||++ +++++|+++|++||.|..|.|+  ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|+++....
T Consensus        10 ~~~~l~V~nl~~~-~t~~~l~~~F~~~G~i~~v~~~--~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~   86 (103)
T 2dgu_A           10 KVKVLFVRNLANT-VTEEILEKAFSQFGKLERVKKL--KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQK   86 (103)
T ss_dssp             CCCCEEEECCCTT-CCHHHHHHHHHHHSCEEEEEEC--SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCCCCC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEE--CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCCCccc
Confidence            4689999999995 9999999999999999999987  56999999999999999999999 899999999999765543

>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=99.55  E-value=8.5e-15  Score=130.27  Aligned_cols=75  Identities=21%  Similarity=0.344  Sum_probs=69.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHH---HhhccCCCEEEEEEecCC---------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEE
Q 048615          176 LRTLFVNNVPLKSNRREALL---SHFQKFGEVVDIYIPLNS---------ERAFVQFSKREEAEAALKSPDA-VMGNRFI  242 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~---~~FskfG~I~~v~v~~dk---------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~I  242 (634)
                      .++|||+|||++ +++++|+   ++|++||.|.+|.|+.++         +||||+|.+.++|.+|++.|++ .|+||.|
T Consensus        15 ~~~l~V~nLp~~-~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l   93 (111)
T 2cpi_A           15 KNLVFVVGLSQR-LADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   93 (111)
T ss_dssp             SSCEEEEEECTT-TCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEE
Confidence            579999999995 9999999   999999999999998765         5999999999999999999999 8999999


Q ss_pred             EEEeecCCC
Q 048615          243 KLWWANRDS  251 (634)
Q Consensus       243 kV~wak~~~  251 (634)
                      +|.|+++..
T Consensus        94 ~V~~a~~k~  102 (111)
T 2cpi_A           94 KASLGTTKY  102 (111)
T ss_dssp             EEESCCCCS
T ss_pred             EEEeccccc
Confidence            999998654

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

Probab=99.55  E-value=3.4e-14  Score=124.12  Aligned_cols=77  Identities=17%  Similarity=0.335  Sum_probs=69.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++|| |..|+|+.++      +||||+|.+.++|.+|+ .|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~   89 (103)
T 2dng_A           13 EPPYTAYVGNLPFN-TVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDI   89 (103)
T ss_dssp             SSCEEEEEESCCTT-CCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEE
T ss_pred             CCCeEEEEeCCCCC-CCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEE
Confidence            34689999999995 99999999999997 9999999875      59999999999999999 8999 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        90 a~~~~~~   96 (103)
T 2dng_A           90 AEGRKQD   96 (103)
T ss_dssp             CCCCCCC
T ss_pred             ecCCCCC
Confidence            9865543

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.55  E-value=3.5e-14  Score=123.48  Aligned_cols=76  Identities=28%  Similarity=0.380  Sum_probs=67.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|   +++.+     ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|+
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           13 GESKTLVLSNLSYS-ATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             CCCSEEEEESCCTT-CCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            44689999999995 9999999999999988   44443     57999999999999999999999 899999999999


Q ss_pred             cCCCCC
Q 048615          248 NRDSIP  253 (634)
Q Consensus       248 k~~~~~  253 (634)
                      ++...+
T Consensus        89 ~~~~~~   94 (101)
T 2fc9_A           89 GPRGSP   94 (101)
T ss_dssp             SSCCCC
T ss_pred             CCCCCC
Confidence            876543

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.55  E-value=1e-14  Score=126.28  Aligned_cols=77  Identities=21%  Similarity=0.273  Sum_probs=71.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEE-EEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeE----E
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVV-DIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRF----I  242 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~-~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~----I  242 (634)
                      ..++|||+|||++ +++++|+++|++||.|. .|+|++++      +||||+|.+.++|.+|++.|++ .|+|+.    |
T Consensus         8 ~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l   86 (99)
T 2div_A            8 MAASLWMGDLEPY-MDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRF   86 (99)
T ss_dssp             SSSEEEECSCCTT-CCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEEC
T ss_pred             CccEEEEeCCCCC-CCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeE
Confidence            4689999999995 99999999999999999 99999875      6999999999999999999999 799999    9


Q ss_pred             EEEeecCCCC
Q 048615          243 KLWWANRDSI  252 (634)
Q Consensus       243 kV~wak~~~~  252 (634)
                      +|.|+++...
T Consensus        87 ~v~~a~~~~~   96 (99)
T 2div_A           87 KLNYATYSGP   96 (99)
T ss_dssp             CEEETTCCSS
T ss_pred             EEeecCCCCC
Confidence            9999986654

>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=99.54  E-value=1.7e-14  Score=121.75  Aligned_cols=75  Identities=20%  Similarity=0.316  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      .++|||+|||++ +++++|+++|++||.|..|.|+.+       ++||||+|.+.++|.+|+..|+| .|+|+.|+|.|+
T Consensus         4 ~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A            4 PTKVHIGRLTRN-VTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CCEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            579999999995 999999999999999999998763       47999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus        83 ~~~~   86 (88)
T 4a8x_A           83 LAPW   86 (88)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            7543

>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=99.54  E-value=1e-14  Score=127.79  Aligned_cols=79  Identities=23%  Similarity=0.324  Sum_probs=71.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-cc---CCeEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VM---GNRFIK  243 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l---~gR~Ik  243 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|+..|++ .+   +|+.|+
T Consensus        11 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           11 HDAIKLFIGQIPRN-LDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             TTCEEEEEESCCTT-CCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            34689999999995 999999999999999999999885      36999999999999999999999 66   889999


Q ss_pred             EEeecCCCCC
Q 048615          244 LWWANRDSIP  253 (634)
Q Consensus       244 V~wak~~~~~  253 (634)
                      |.|+++....
T Consensus        90 v~~a~~~~~~   99 (106)
T 2dgp_A           90 VKPADSESRG   99 (106)
T ss_dssp             EEECCCCSCC
T ss_pred             EEECCccccc
Confidence            9999866543

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.54  E-value=1.9e-14  Score=123.37  Aligned_cols=75  Identities=23%  Similarity=0.296  Sum_probs=69.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .+.++|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~v~nlp~~-~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (95)
T 2cqc_A           13 DPNCCLGVFGLSLY-TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG   91 (95)
T ss_dssp             CGGGCEEEESCCSS-CCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            44689999999995 9999999999999999999998764      5999999999999999999999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      ++.
T Consensus        92 a~~   94 (95)
T 2cqc_A           92 PSS   94 (95)
T ss_dssp             CSC
T ss_pred             cCC
Confidence            973

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.54  E-value=4e-14  Score=125.66  Aligned_cols=78  Identities=23%  Similarity=0.180  Sum_probs=71.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +..++|||+|||++ +++++|+++|++||.|.+|+|+.+     ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|+
T Consensus        13 ~~~~~l~V~nlp~~-~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   91 (114)
T 2do0_A           13 RLGSTVFVANLDYK-VGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMD   91 (114)
T ss_dssp             CCCSCEEEESCCTT-CCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEc
Confidence            44689999999995 999999999999999999999987     46999999999999999999999 899999999999


Q ss_pred             cCCCC
Q 048615          248 NRDSI  252 (634)
Q Consensus       248 k~~~~  252 (634)
                      +....
T Consensus        92 ~~~~~   96 (114)
T 2do0_A           92 ERALP   96 (114)
T ss_dssp             SCCCC
T ss_pred             ccCCC
Confidence            75543

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.54  E-value=1.2e-14  Score=127.51  Aligned_cols=77  Identities=22%  Similarity=0.355  Sum_probs=70.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|+.++      +||||+|.+.++|.+|+..++| .|+|+.|+|.|
T Consensus        21 ~~~~~l~V~nlp~~-~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   99 (106)
T 1p27_B           21 VEGWILFVTGVHEE-ATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   99 (106)
T ss_dssp             TTBEEEEEECCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEe
Confidence            34689999999995 9999999999999999999998763      6999999999999999999999 89999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      +++..
T Consensus       100 a~~~~  104 (106)
T 1p27_B          100 CFVRG  104 (106)
T ss_dssp             SEESS
T ss_pred             ecCCC
Confidence            97543

>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=99.54  E-value=1.9e-14  Score=125.09  Aligned_cols=74  Identities=22%  Similarity=0.409  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCC-CCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPL-KSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~-d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +..++|||+|||+ + +++++|+.+|++||.|..|+|.  ++||||+|.+.++|.+|+..++| .++|+.|+|.|++..
T Consensus        20 ~~~~~l~V~nLp~~~-~t~~~L~~~F~~~G~v~~v~i~--~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKN-VSKEDLFRIFSPYGHIMQINIK--NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSSN   95 (97)
T ss_dssp             CTTCEEEEESCCSSC-CCHHHHHHHHGGGSCEEEEEEC--SSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCCC
T ss_pred             CCCCEEEEeCCCccc-CCHHHHHHHHHhcCCEEEEEEe--CCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCCC
Confidence            4578999999998 7 9999999999999999999985  79999999999999999999999 799999999999754

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

Probab=99.54  E-value=1.4e-14  Score=126.54  Aligned_cols=78  Identities=22%  Similarity=0.279  Sum_probs=71.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhcc-CCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-c-cCCeEEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQK-FGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-V-MGNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~Fsk-fG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~-l~gR~IkV~  245 (634)
                      .+.++|||+|||++ +++++|+++|++ ||.|..|+|+.+     ++||||+|.+.++|.+|++.|++ . |+|+.|+|.
T Consensus         7 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~   85 (104)
T 2dhg_A            7 GPEYSLFVGDLTPD-VDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLS   85 (104)
T ss_dssp             SCCCCEEEECCCTT-CCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCC
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEE
Confidence            44689999999995 999999999999 999999999987     47999999999999999999999 7 999999999


Q ss_pred             eecCCCC
Q 048615          246 WANRDSI  252 (634)
Q Consensus       246 wak~~~~  252 (634)
                      |+++...
T Consensus        86 ~a~~~~~   92 (104)
T 2dhg_A           86 VAIPKAS   92 (104)
T ss_dssp             BCCCCCS
T ss_pred             EccCCCc
Confidence            9975543

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.54  E-value=2.6e-14  Score=127.58  Aligned_cols=76  Identities=21%  Similarity=0.388  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+.+|++||.|..|+|+.++      +||||+|.+.++|.+|+.. ++ .|+|+.|+|.|++
T Consensus        27 ~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~  104 (116)
T 1x4b_A           27 FRKLFIGGLSFE-TTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAV  104 (116)
T ss_dssp             HTEEEEECCTTC-CCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCS
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECC
Confidence            589999999995 9999999999999999999999863      6999999999999999999 88 8999999999998


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      +....
T Consensus       105 ~~~~~  109 (116)
T 1x4b_A          105 AREES  109 (116)
T ss_dssp             SCCCC
T ss_pred             CCccC
Confidence            66543

>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=99.53  E-value=1.7e-14  Score=127.36  Aligned_cols=77  Identities=19%  Similarity=0.340  Sum_probs=70.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|+.++      +||||+|.+.++|.+|+..|+| .|+|+.|+|.|
T Consensus        24 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  102 (110)
T 1oo0_B           24 VEGWILFVTSIHEE-AQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDW  102 (110)
T ss_dssp             TTBEEEEEESCCTT-CCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            34689999999995 9999999999999999999998763      7999999999999999999999 89999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      +++..
T Consensus       103 a~~~~  107 (110)
T 1oo0_B          103 CFVKG  107 (110)
T ss_dssp             SEESS
T ss_pred             cccCC
Confidence            97554

>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=99.53  E-value=1.2e-14  Score=124.82  Aligned_cols=74  Identities=26%  Similarity=0.294  Sum_probs=69.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++     +||||+|.+.++|.+|++.|++ .|+||.|+|.|+
T Consensus        14 ~~~~~l~v~nlp~~-~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (95)
T 2ywk_A           14 EADRTVFVGNLEAR-VREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGP   92 (95)
T ss_dssp             TGGGEEEEECCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEc
Confidence            34689999999995 9999999999999999999999873     6999999999999999999999 899999999998


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      +
T Consensus        93 ~   93 (95)
T 2ywk_A           93 S   93 (95)
T ss_dssp             C
T ss_pred             C
Confidence            6

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

Probab=99.53  E-value=9e-15  Score=127.25  Aligned_cols=75  Identities=21%  Similarity=0.341  Sum_probs=70.5

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ++|||+|||++ +++++|+++|++||.|..|.|+.+ ++||||+|.+.++|.+|+..|++ .++|+.|+|.|+++...
T Consensus         1 ~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A            1 MKVYVGNLGTG-AGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CEEEEECCCSS-CSHHHHHHHHHHHCCCSEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             CEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            58999999995 999999999999999999999997 89999999999999999999998 89999999999986653

>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=99.53  E-value=1.6e-14  Score=124.36  Aligned_cols=78  Identities=27%  Similarity=0.486  Sum_probs=70.6

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHH----HhhccCCCEEEEEEec---CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          173 QKALRTLFVNNVPLKSNRREALL----SHFQKFGEVVDIYIPL---NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~----~~FskfG~I~~v~v~~---dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      .++.++|||+|||++ +++++|+    .+|++||.|..|.|..   .++||||+|.+.++|.+|+..|+| .|+|+.|+|
T Consensus         5 ~~~~~~l~V~nLp~~-~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   83 (97)
T 1nu4_A            5 TRPNHTIYINNLNEK-IKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   83 (97)
T ss_dssp             -CCCSEEEEESCCTT-SCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCC-CCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEE
Confidence            345789999999995 9999999    9999999999999873   468999999999999999999999 799999999


Q ss_pred             EeecCCC
Q 048615          245 WWANRDS  251 (634)
Q Consensus       245 ~wak~~~  251 (634)
                      .|++++.
T Consensus        84 ~~a~~~~   90 (97)
T 1nu4_A           84 QYAKTDS   90 (97)
T ss_dssp             EECSSCC
T ss_pred             EEccCCC
Confidence            9998654

>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=99.53  E-value=9.6e-15  Score=125.17  Aligned_cols=77  Identities=14%  Similarity=0.255  Sum_probs=67.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC--ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIPLNSERAFVQFSKREEAEAALKSPDA--VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng--~l~gR~IkV~wak~~  250 (634)
                      ...++|||+|||++ +++++|+++|++||. |..+.+ ..++||||+|.+.++|.+|++.|++  .|+|+.|+|.|+++.
T Consensus         6 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~vv~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~   83 (93)
T 2cqh_A            6 SGMNKLYIGNLSPA-VTADDLRQLFGDRKLPLAGQVL-LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSK   83 (93)
T ss_dssp             CCCCCEEEECCCTT-CCHHHHHHHHHHTTCCCSSCEE-EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCC
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHHcCCceEEEEE-cCCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccCc
Confidence            34689999999995 999999999999999 554544 5689999999999999999999998  599999999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        84 ~~   85 (93)
T 2cqh_A           84 KL   85 (93)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

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

Probab=99.53  E-value=8.5e-15  Score=127.65  Aligned_cols=74  Identities=18%  Similarity=0.293  Sum_probs=67.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCC--EEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-----ccCCe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGE--VVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-----VMGNR  240 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~--I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-----~l~gR  240 (634)
                      ....||||+|||++ +|+++|+++|++||.  |.+|+|++|+      |||||+|.+.++|.+|++.+++     .|+||
T Consensus         7 ~~m~tlfV~nL~~~-~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr   85 (95)
T 2lkz_A            7 HHMDTIILRNIAPH-TVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGK   85 (95)
T ss_dssp             CCCCEEEEESCCTT-CCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTE
T ss_pred             CccCEEEEeCCCCc-CCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCE
Confidence            44679999999995 999999999999995  6789998864      6999999999999999999988     38999


Q ss_pred             EEEEEeec
Q 048615          241 FIKLWWAN  248 (634)
Q Consensus       241 ~IkV~wak  248 (634)
                      +|+|.||+
T Consensus        86 ~i~V~~Ak   93 (95)
T 2lkz_A           86 TIGVDFAK   93 (95)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEcc
Confidence            99999997

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.52  E-value=1.7e-14  Score=126.33  Aligned_cols=78  Identities=26%  Similarity=0.347  Sum_probs=71.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+.. ++ .|+|+.|+|.|
T Consensus        14 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~   91 (105)
T 2dh8_A           14 DEIGKLFVGGLDWS-TTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKP   91 (105)
T ss_dssp             SSSSEECCBSCCTT-CCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            44689999999995 9999999999999999999999874      5999999999999999999 88 89999999999


Q ss_pred             ecCCCCC
Q 048615          247 ANRDSIP  253 (634)
Q Consensus       247 ak~~~~~  253 (634)
                      +++....
T Consensus        92 a~~~~~~   98 (105)
T 2dh8_A           92 CTPRGMQ   98 (105)
T ss_dssp             SCCSSCC
T ss_pred             ccCCCCC
Confidence            9865543

>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=99.52  E-value=2.4e-14  Score=121.23  Aligned_cols=73  Identities=27%  Similarity=0.429  Sum_probs=68.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|+ .+++ .|+|+.|+|.|++
T Consensus         6 ~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~   83 (89)
T 3ucg_A            6 ARSIYVGNVDYG-ATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKR   83 (89)
T ss_dssp             HTEEEEESCCTT-CCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETT
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEcc
Confidence            479999999995 999999999999999999999886      469999999999999999 9999 8999999999998


Q ss_pred             CC
Q 048615          249 RD  250 (634)
Q Consensus       249 ~~  250 (634)
                      +.
T Consensus        84 ~~   85 (89)
T 3ucg_A           84 TN   85 (89)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

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

Probab=99.52  E-value=1.9e-14  Score=128.73  Aligned_cols=74  Identities=23%  Similarity=0.386  Sum_probs=68.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|.+|+|+.+      ++||||+|.+.++|.+|++.|+| .|+||.|+|.|
T Consensus        38 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~  116 (118)
T 2khc_A           38 PEGCNLFIYHLPQE-FTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQL  116 (118)
T ss_dssp             CCSEEEEEECSCTT-CCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            45789999999995 999999999999999999999876      46999999999999999999999 89999999999


Q ss_pred             ec
Q 048615          247 AN  248 (634)
Q Consensus       247 ak  248 (634)
                      ++
T Consensus       117 ak  118 (118)
T 2khc_A          117 KK  118 (118)
T ss_dssp             C-
T ss_pred             cC
Confidence            85

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

Probab=99.52  E-value=2e-14  Score=127.67  Aligned_cols=76  Identities=24%  Similarity=0.365  Sum_probs=70.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|.  ++||||+|.+.++|.+|+..|+| .|+|+.|+|.|+++...
T Consensus        29 ~~~~~l~V~nLp~~-~t~~~L~~~F~~~G~i~~v~i~--kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  105 (108)
T 2jvo_A           29 LSNTRLFVRPFPLD-VQESELNEIFGPFGPMKEVKIL--NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPAK  105 (108)
T ss_dssp             CSCSEEEECSSCTT-CCHHHHHHHHTTTSCCCEEEEE--TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSCCC-
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhcCCEEEEEEE--CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCCCC
Confidence            44689999999995 9999999999999999999998  89999999999999999999999 89999999999986543

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.52  E-value=1.6e-14  Score=128.24  Aligned_cols=76  Identities=28%  Similarity=0.431  Sum_probs=70.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+    ++||||+|.+.++|.+|+..++| .|+|+.|+|.|++
T Consensus        27 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           27 SQPKRLHVSNIPFR-FRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             TCCCEEEEESCCTT-CCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEECCCCc-CCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            44689999999995 999999999999999999999887    57999999999999999999999 8999999999997


Q ss_pred             CC
Q 048615          249 RD  250 (634)
Q Consensus       249 ~~  250 (634)
                      +.
T Consensus       106 ~~  107 (109)
T 2err_A          106 AR  107 (109)
T ss_dssp             CS
T ss_pred             CC
Confidence            53

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.52  E-value=1.8e-14  Score=124.97  Aligned_cols=75  Identities=23%  Similarity=0.271  Sum_probs=69.3

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--------EEEecCC------CeEEEEeCCHHHHHHHHHcCCC-cc
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--------IYIPLNS------ERAFVQFSKREEAEAALKSPDA-VM  237 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--------v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l  237 (634)
                      ....++|||+|||++ +++++|+++|++||.|..        |+|+.++      |||||+|.+.++|.+|++.|+| .|
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 HSDNNTIFVQGLGEN-VTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEF   88 (99)
T ss_dssp             CCCCSEEEEECCCSS-CCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBS
T ss_pred             CCCCCEEEEeCCCCC-CCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEe
Confidence            355789999999995 999999999999999999        9998874      5999999999999999999999 89


Q ss_pred             CCeEEEEEeec
Q 048615          238 GNRFIKLWWAN  248 (634)
Q Consensus       238 ~gR~IkV~wak  248 (634)
                      +||.|+|.||+
T Consensus        89 ~g~~l~V~~A~   99 (99)
T 2la6_A           89 SGNPIKVSFAT   99 (99)
T ss_dssp             SSSBCEEEECC
T ss_pred             CCcEEEEEecC
Confidence            99999999984

>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=99.52  E-value=3.1e-14  Score=125.35  Aligned_cols=78  Identities=24%  Similarity=0.353  Sum_probs=70.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEe-------cCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIP-------LNSERAFVQFSKREEAEAALKSPD--A-VMGNRFI  242 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~-------~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~I  242 (634)
                      ...++|||+|||++ +++++|+++|++||. |.+|.|+       ..++||||+|.+.++|.+|+..|+  + .|+||.|
T Consensus         6 ~~~~~l~V~nLp~~-~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l   84 (109)
T 2dis_A            6 SGNCRLFIGGIPKM-KKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQI   84 (109)
T ss_dssp             CCSEEEEEECCCTT-SCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCC
T ss_pred             cCCCEEEEeCCCCc-CCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeE
Confidence            34689999999995 999999999999998 9999998       345799999999999999999996  4 7999999


Q ss_pred             EEEeecCCCC
Q 048615          243 KLWWANRDSI  252 (634)
Q Consensus       243 kV~wak~~~~  252 (634)
                      +|.|+++...
T Consensus        85 ~V~~a~~~~~   94 (109)
T 2dis_A           85 AVDWAEPEID   94 (109)
T ss_dssp             EEEESCSSCS
T ss_pred             EEEEcCCCCC
Confidence            9999986554

>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=99.51  E-value=4.5e-14  Score=119.31  Aligned_cols=73  Identities=26%  Similarity=0.407  Sum_probs=66.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|++.++..|+||.|+|.||
T Consensus         9 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A            9 EDAGKMFVGGLSWD-TSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             SCTTEEEEECCCTT-CCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            34689999999995 9999999999999999999998874      5999999999999999987544899999999986

>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=99.51  E-value=3.5e-14  Score=124.62  Aligned_cols=74  Identities=18%  Similarity=0.273  Sum_probs=69.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      .+.++|||+|||+. +++++|+++|++||.|..|.|+.+     ++||||+|.+.++|.+|++.|++ .|+|+.|+|.|+
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 (107)
T 3ulh_A           27 ETGGKLLVSNLDFG-VSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLV  105 (107)
T ss_dssp             CCSEEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            45789999999995 999999999999999999999976     46999999999999999999999 899999999998


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      +
T Consensus       106 ~  106 (107)
T 3ulh_A          106 T  106 (107)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.50  E-value=2.6e-14  Score=126.79  Aligned_cols=76  Identities=22%  Similarity=0.360  Sum_probs=70.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|+|+.++      +||||+|.+.++|.+|++.++| .|+||.|+|.|
T Consensus        24 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  102 (108)
T 2jrs_A           24 AGPMRLYVGSLHFN-ITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGH  102 (108)
T ss_dssp             SSCEEEEEECCCSS-CCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            34689999999995 9999999999999999999998763      6999999999999999999999 89999999999


Q ss_pred             ecCC
Q 048615          247 ANRD  250 (634)
Q Consensus       247 ak~~  250 (634)
                      +++.
T Consensus       103 a~~k  106 (108)
T 2jrs_A          103 VTER  106 (108)
T ss_dssp             SCSS
T ss_pred             cccC
Confidence            9754

>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=99.50  E-value=1.4e-14  Score=158.75  Aligned_cols=76  Identities=21%  Similarity=0.365  Sum_probs=70.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||+. +++++|..+|++||.|..|.|+.+      ++||||+|.+.++|.+||..|+| .|+|+.|+|.|+
T Consensus       101 ~~~~lfV~nL~~~-~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a  179 (437)
T 3pgw_S          101 AFKTLFVARVNYD-TTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVE  179 (437)
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            3589999999995 999999999999999999999876      47999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus       180 ~~~~  183 (437)
T 3pgw_S          180 RGRT  183 (437)
T ss_pred             CCCC
Confidence            7543

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=1.3e-14  Score=122.08  Aligned_cols=73  Identities=18%  Similarity=0.256  Sum_probs=67.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|..|.|+.+      ++||||+|.+.++|.+|++.|+| .|+||.|+|.|.
T Consensus         4 ~~~~l~v~nlp~~-~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            4 GSSGLYIRGLQPG-TTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCcEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            3689999999995 999999999999999999999887      46999999999999999999999 899999999886


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      +
T Consensus        83 ~   83 (85)
T 1x4e_A           83 S   83 (85)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.50  E-value=4.7e-14  Score=129.43  Aligned_cols=76  Identities=18%  Similarity=0.345  Sum_probs=68.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHH----HhhccCCCEEEEEEec---CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALL----SHFQKFGEVVDIYIPL---NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~----~~FskfG~I~~v~v~~---dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      .++++|||+|||+. +++++|+    ++|++||.|.+|.+..   .+|||||+|.+.++|..|+..|+| .|.||.|+|.
T Consensus        27 ~p~~~LfV~nL~~~-~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~  105 (127)
T 2a3j_A           27 EPSQVVLITNINPE-VPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVIT  105 (127)
T ss_dssp             SCCSEEEEESCCTT-SCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEE
Confidence            34689999999995 9999876    6999999999999865   368999999999999999999999 8999999999


Q ss_pred             eecCC
Q 048615          246 WANRD  250 (634)
Q Consensus       246 wak~~  250 (634)
                      |++..
T Consensus       106 ~a~~~  110 (127)
T 2a3j_A          106 FSETP  110 (127)
T ss_dssp             ECCCC
T ss_pred             EccCc
Confidence            99754

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.49  E-value=9.5e-14  Score=118.45  Aligned_cols=74  Identities=26%  Similarity=0.429  Sum_probs=68.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++| .|..|+|+.+     ++||||+|.+.++|.+|+. +++ .|+||.|+|.|+
T Consensus         8 ~~~~~l~v~nLp~~-~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a   84 (91)
T 2dgw_A            8 TTCHTVKLRGAPFN-VTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFRE   84 (91)
T ss_dssp             CCCCEEEEECCCSS-CCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEE
T ss_pred             CCccEEEEECCCCC-CCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEEC
Confidence            34689999999995 9999999999999 9999999886     3699999999999999999 999 899999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      ++.
T Consensus        85 ~~~   87 (91)
T 2dgw_A           85 KSG   87 (91)
T ss_dssp             SSC
T ss_pred             CcC
Confidence            755

>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=99.49  E-value=1.1e-14  Score=126.94  Aligned_cols=75  Identities=24%  Similarity=0.445  Sum_probs=69.7

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+.+|++||.|..|.|+.+      ++||||+|.+.++|.+|++.++| .|+|+.|+|.|++
T Consensus         8 ~~~l~V~nlp~~-~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   86 (104)
T 1p1t_A            8 LRSVFVGNIPYE-ATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HSCEEEESCCTT-SCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             ccEEEEeCCCCc-CCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCC
Confidence            589999999995 999999999999999999999876      36999999999999999999999 8999999999997


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        87 ~~~   89 (104)
T 1p1t_A           87 SEK   89 (104)
T ss_dssp             CTT
T ss_pred             Ccc
Confidence            554

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.49  E-value=3.2e-14  Score=127.63  Aligned_cols=74  Identities=12%  Similarity=0.057  Sum_probs=68.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCC-CEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFG-EVVDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG-~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ..++|||+|||++ +++++|+++|++|| .|..|.|..  .+|||||+|.+.++|++|++.|+| .|+||.|+|.|++.
T Consensus        27 ~~~~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           27 KRYRITMKNLPEG-CSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDN  104 (111)
T ss_dssp             CCEEEEEECSSCC-CCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            3579999999996 99999999999999 999999863  468999999999999999999999 89999999999863

>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=99.49  E-value=3.4e-14  Score=130.30  Aligned_cols=77  Identities=22%  Similarity=0.300  Sum_probs=70.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .+.++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|+..|++ .|+|+.|+|.|
T Consensus        44 ~~~~~l~V~nLp~~-~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           44 DPNCCLGVFGLSLY-TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCSSCBCEETCTTS-CCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            44689999999995 999999999999999999999875      36999999999999999999999 89999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      +++.+
T Consensus       123 a~~~~  127 (129)
T 2kxn_B          123 SITKR  127 (129)
T ss_dssp             CSSSS
T ss_pred             ecCCC
Confidence            98654

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.49  E-value=1e-13  Score=120.60  Aligned_cols=77  Identities=23%  Similarity=0.318  Sum_probs=66.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|+.|+.   |.++.++      +||||+|.+.++|.+|++.|++ .|+|+.|+|.|
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~~~---~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2fc8_A           13 QPSKTLFVKGLSED-TTEETLKESFDGSVR---ARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDW   88 (102)
T ss_dssp             CCCSSEEEECCCTT-CCHHHHHHTSTTCSE---EEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCc-cCHHHHHHHhcCCeE---EEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            45789999999995 999999999999864   5555543      6999999999999999999999 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++....+
T Consensus        89 a~~~~~~~   96 (102)
T 2fc8_A           89 AKPKGEGG   96 (102)
T ss_dssp             CCCCCSSS
T ss_pred             ecCCCCCC
Confidence            98766543

>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=99.49  E-value=5.8e-14  Score=119.44  Aligned_cols=75  Identities=16%  Similarity=0.280  Sum_probs=69.7

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      ..++|||+|||++ +++++|+++|++| .|.+|+|...++||||+|.+.++|.+|++.++| .++||.|+|.|+..+.
T Consensus         4 ~~~~l~V~nLp~~-~t~~~l~~~F~~~-~v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~~   79 (88)
T 1wg1_A            4 GSSGILVKNLPQD-SNCQEVHDLLKDY-DLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             CCCCEEEESCCSS-CCHHHHHHHTCSS-CCCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHhhC-CeEEEEEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCCc
Confidence            3689999999995 9999999999999 999999988889999999999999999999999 8999999999996543

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.49  E-value=1e-13  Score=123.06  Aligned_cols=76  Identities=18%  Similarity=0.273  Sum_probs=68.3

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak  248 (634)
                      ..++|||+|||++ +++++|+.+|++||.|..|+|+.++      +||||+|.+.++|.+|+..++..|+||.|+|.|+.
T Consensus        24 ~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~a~  102 (109)
T 2rs2_A           24 SGCKMFIGGLSWQ-TTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAF  102 (109)
T ss_dssp             --CCEEEESCCTT-CCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcc
Confidence            4689999999995 9999999999999999999998863      69999999999999999998658999999999997


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus       103 ~~~  105 (109)
T 2rs2_A          103 PRR  105 (109)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

>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=99.49  E-value=2.5e-13  Score=118.45  Aligned_cols=76  Identities=21%  Similarity=0.340  Sum_probs=68.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+..  + .|+|+.|+|.|
T Consensus        13 ~~~~~l~v~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~l~v~~   89 (103)
T 2cqg_A           13 QKTSDLIVLGLPWK-TTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKL   89 (103)
T ss_dssp             CCCCCEEEESCCSS-CCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEEC
T ss_pred             CCCCEEEEEcCCCc-CCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHc--CCeeCCeEEEEEe
Confidence            34689999999995 9999999999999999999999874      5999999999999999995  5 79999999999


Q ss_pred             ecCCCC
Q 048615          247 ANRDSI  252 (634)
Q Consensus       247 ak~~~~  252 (634)
                      +++...
T Consensus        90 a~~~~~   95 (103)
T 2cqg_A           90 PNSKQS   95 (103)
T ss_dssp             CCTTCC
T ss_pred             cCCCCc
Confidence            986544

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.49  E-value=1.6e-14  Score=126.28  Aligned_cols=73  Identities=25%  Similarity=0.338  Sum_probs=68.2

Q ss_pred             CCEEEEeCCCC------CCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCC-eE
Q 048615          176 LRTLFVNNVPL------KSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGN-RF  241 (634)
Q Consensus       176 ~~tLfVgnLp~------d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~g-R~  241 (634)
                      +++|||+|||+      + +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++.|+| .|+| |.
T Consensus         6 ~~~vfV~nLp~v~~~~~~-~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~   84 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVP-VLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHR   84 (100)
T ss_dssp             GGEEEEESCCCCBGGGHH-HHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCB
T ss_pred             CcEEEEeCCCcCChHHHH-HHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeE
Confidence            57999999999      8 8999999999999999999998754      7999999999999999999999 8998 99


Q ss_pred             EEEEeecC
Q 048615          242 IKLWWANR  249 (634)
Q Consensus       242 IkV~wak~  249 (634)
                      |+|.|+++
T Consensus        85 l~V~~a~~   92 (100)
T 3ns6_A           85 LFLYTMKD   92 (100)
T ss_dssp             CEEEESHH
T ss_pred             EEEEECch
Confidence            99999964

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.48  E-value=6.3e-14  Score=126.39  Aligned_cols=75  Identities=27%  Similarity=0.420  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.+      ++||||+|.+.++|.+|+ .++| .|+|+.|+|.|++
T Consensus        36 ~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           36 KRSVYVGNVDYG-STAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             HTEEEEEEECTT-CCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESS
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECC
Confidence            479999999995 999999999999999999999876      469999999999999999 8999 8999999999998


Q ss_pred             CCCC
Q 048615          249 RDSI  252 (634)
Q Consensus       249 ~~~~  252 (634)
                      ....
T Consensus       114 ~~~~  117 (124)
T 2jwn_A          114 TNMP  117 (124)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            5543

>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=99.48  E-value=7.2e-14  Score=124.34  Aligned_cols=75  Identities=23%  Similarity=0.417  Sum_probs=69.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|.|+.+   ++||||+|.+.++|.+|+..|+| .++|+.|+|.|+++
T Consensus         6 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   84 (115)
T 3lqv_A            6 EVNRILYIRNLPYK-ITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNA   84 (115)
T ss_dssp             TCCSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCH
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecC
Confidence            34689999999995 999999999999999999999875   47999999999999999999999 89999999999963

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.48  E-value=1.2e-13  Score=124.82  Aligned_cols=77  Identities=18%  Similarity=0.258  Sum_probs=71.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|+|+.+     ++||||+|.+.++|.+|+..+++ .|+|+.|+|.|+
T Consensus        33 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  111 (124)
T 2kt5_A           33 ETGAKLLVSNLDFG-VSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  111 (124)
T ss_dssp             SSCEEEEEESCCSS-CCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEe
Confidence            45689999999995 999999999999999999999885     47999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      .+..
T Consensus       112 ~~~~  115 (124)
T 2kt5_A          112 ASQI  115 (124)
T ss_dssp             CCTT
T ss_pred             CCCC
Confidence            7544

>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=99.48  E-value=1e-13  Score=121.90  Aligned_cols=76  Identities=18%  Similarity=0.381  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||. ++|+|+.++     +||||+|.+.++|.+||+ +++ .|+||.|+|.++
T Consensus        13 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~-~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~~   89 (102)
T 1wez_A           13 TTGHCVHMRGLPYR-ATENDIYNFFSPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLN   89 (102)
T ss_dssp             SSSCEEEEESCCTT-CCHHHHHHSSCSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHcCc-eEEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            34689999999995 999999999999995 499998764     599999999999999995 688 899999999999


Q ss_pred             cCCCC
Q 048615          248 NRDSI  252 (634)
Q Consensus       248 k~~~~  252 (634)
                      .+...
T Consensus        90 ~~~~~   94 (102)
T 1wez_A           90 STAGT   94 (102)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            75543

>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=99.48  E-value=1.5e-13  Score=129.09  Aligned_cols=77  Identities=25%  Similarity=0.420  Sum_probs=71.0

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+||..|++ .|+|+.|+|.|+
T Consensus        38 ~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  116 (156)
T 1h2v_Z           38 KSCTLYVGNLSFY-TTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD  116 (156)
T ss_dssp             TCCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            4689999999995 9999999999999999999998874      5999999999999999999999 899999999999


Q ss_pred             cCCCC
Q 048615          248 NRDSI  252 (634)
Q Consensus       248 k~~~~  252 (634)
                      ++...
T Consensus       117 ~~~~~  121 (156)
T 1h2v_Z          117 AGFKE  121 (156)
T ss_dssp             SCCCT
T ss_pred             CCCCC
Confidence            86544

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

Probab=99.48  E-value=1e-13  Score=122.00  Aligned_cols=73  Identities=19%  Similarity=0.368  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCCCC------CHHHHHHhhccCCCEEEEEEec----CCCeEEEEeCCHHHHHHHHHcCCC-ccCCe-EEE
Q 048615          176 LRTLFVNNVPLKSN------RREALLSHFQKFGEVVDIYIPL----NSERAFVQFSKREEAEAALKSPDA-VMGNR-FIK  243 (634)
Q Consensus       176 ~~tLfVgnLp~d~~------te~~L~~~FskfG~I~~v~v~~----dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR-~Ik  243 (634)
                      .++|||+|||+. +      ++++|+.+|++||.|..|.|++    .+|||||+|.+.++|.+|+..|+| .|+|| .|+
T Consensus        15 ~~~l~V~nLp~~-~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~   93 (105)
T 2nlw_A           15 DSVIVVDNVPQV-GPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFR   93 (105)
T ss_dssp             CSEEEEESCCCC-CTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEE
T ss_pred             CCEEEEeCCCcc-hhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEE
Confidence            589999999995 8      7899999999999999999984    257999999999999999999999 89998 999


Q ss_pred             EEeecC
Q 048615          244 LWWANR  249 (634)
Q Consensus       244 V~wak~  249 (634)
                      |.|+..
T Consensus        94 V~~a~~   99 (105)
T 2nlw_A           94 VNLFTD   99 (105)
T ss_dssp             EECSCC
T ss_pred             EEEcch
Confidence            999964

>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=99.48  E-value=2.2e-13  Score=119.70  Aligned_cols=76  Identities=26%  Similarity=0.489  Sum_probs=68.1

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE-EEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~-v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|.+ |+|+.+     +|||||+|.+.++|.+|+.. ++ .|+||.|+|.+
T Consensus        13 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~   90 (104)
T 1wg5_A           13 ANDGFVRLRGLPFG-CSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFK   90 (104)
T ss_dssp             SCCCEEEEESCCTT-CCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEE
Confidence            34689999999995 999999999999999998 888765     47999999999999999998 77 89999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      +.+..
T Consensus        91 ~~~~~   95 (104)
T 1wg5_A           91 SSRAE   95 (104)
T ss_dssp             ECTTT
T ss_pred             CCHHH
Confidence            97543

>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=99.48  E-value=8.2e-14  Score=125.61  Aligned_cols=75  Identities=21%  Similarity=0.301  Sum_probs=69.2

Q ss_pred             CCCCEEEE--eCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-cc-----CCeEEEEE
Q 048615          174 KALRTLFV--NNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VM-----GNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfV--gnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l-----~gR~IkV~  245 (634)
                      .+.++|||  +||+++ +++++|+++|++||.|.+|.|+.+++||||+|.+.++|.+|++.||| .|     .|++|.|.
T Consensus        23 ~pt~~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           23 YATQSLVVANGGLGNG-VSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN  101 (114)
T ss_dssp             SCCSEEEEETCTGGGT-CCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             CCCCEEEEECCCCCCC-CCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEE
Confidence            34679999  779995 99999999999999999999999999999999999999999999999 66     68999999


Q ss_pred             eecC
Q 048615          246 WANR  249 (634)
Q Consensus       246 wak~  249 (634)
                      |++.
T Consensus       102 ~a~~  105 (114)
T 2cq2_A          102 FVEK  105 (114)
T ss_dssp             EESC
T ss_pred             eccc
Confidence            9973

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

Probab=99.48  E-value=1.5e-13  Score=125.95  Aligned_cols=74  Identities=31%  Similarity=0.469  Sum_probs=68.1

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      ....++|||+|||++ +++++|+++|++||.|..|+|+.+      ++||||+|.+.++|.+|++.+++ .|+||.|+|.
T Consensus        60 ~~~~~~l~v~nlp~~-~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  138 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEE-VDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN  138 (140)
T ss_dssp             CSSCCEEEEECCCTT-CCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEE
T ss_pred             CCCCcEEEEEeCCCC-CCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            345789999999995 999999999999999999999876      47999999999999999999999 8999999999


Q ss_pred             ee
Q 048615          246 WA  247 (634)
Q Consensus       246 wa  247 (634)
                      ||
T Consensus       139 ~A  140 (140)
T 2ku7_A          139 LA  140 (140)
T ss_dssp             C-
T ss_pred             eC
Confidence            86

>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=99.48  E-value=7.3e-14  Score=118.55  Aligned_cols=75  Identities=21%  Similarity=0.352  Sum_probs=64.7

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecCCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDSI  252 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~~~~  252 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.+ ++||||+|.+.++|++|+.. .-.++|+.|+|.|+++...
T Consensus         5 ~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~~a~~~~~   80 (88)
T 1wf0_A            5 SSGVFVGRCTGD-MTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGE-DLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             CCEEEEESCCSS-SCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEECCCCCCC
T ss_pred             CcEEEEeCCCCC-CCHHHHHHHHHHcCCeeEEEEecCCCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEEecCCCCC
Confidence            589999999995 999999999999999999999876 78999999999999865322 1157999999999986554

>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=99.48  E-value=4e-14  Score=122.29  Aligned_cols=75  Identities=23%  Similarity=0.309  Sum_probs=67.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..+.++.+      ++||||+|.+.++|.+|++.|++ .|+||.|+|.|
T Consensus        13 ~~~~~l~v~nLp~~-~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   91 (98)
T 2cqp_A           13 PGPTIIKVQNMPFT-VSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   91 (98)
T ss_dssp             CSSEEEEEESCCTT-CCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            34689999999995 999999999999999987776654      36999999999999999999999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      ++.
T Consensus        92 a~~   94 (98)
T 2cqp_A           92 GSG   94 (98)
T ss_dssp             SSC
T ss_pred             cCC
Confidence            873

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=6.2e-14  Score=123.76  Aligned_cols=71  Identities=14%  Similarity=0.289  Sum_probs=66.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.+     +|||||+|.+.++|.+|+. +++ .|+||.|+|.|++
T Consensus        11 ~~~lfV~~Lp~~-~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           11 NRSVYIKGFPTD-ATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   87 (103)
T ss_dssp             GGCEEEECCCTT-CCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHH
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEch
Confidence            579999999996 999999999999999999999985     4799999999999999999 788 8999999999985

>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=99.47  E-value=1.7e-14  Score=123.33  Aligned_cols=74  Identities=14%  Similarity=0.144  Sum_probs=64.0

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCC--CEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFG--EVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG--~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      .+|||+|||++ +++++|+++|++||  .|.+|+|+.++      |||||+|.+.++|.+|++.|+| .|+||.|+|.|+
T Consensus         2 ~~l~V~nL~~~-~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~   80 (90)
T 3p5t_L            2 IALYIGNLTWW-TTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPS   80 (90)
T ss_dssp             --CEEESCCTT-CCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC
T ss_pred             eEEEEeCCCCC-CCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEEC
Confidence            48999999995 99999999999999  99999998874      5999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      .+..
T Consensus        81 ~~~~   84 (90)
T 3p5t_L           81 NKLE   84 (90)
T ss_dssp             ----
T ss_pred             CCCc
Confidence            7543

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

Probab=99.21  E-value=3.5e-15  Score=133.41  Aligned_cols=79  Identities=23%  Similarity=0.254  Sum_probs=71.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--------EEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--------IYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--------v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      +.++|||+|||++ +++++|+++|++||.|..        |+|+.+      ++||||+|.+.++|.+|+..|++ .|+|
T Consensus         6 ~~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   84 (116)
T 2lcw_A            6 DNNTIFVQGLGEN-VTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG   84 (116)
Confidence            3689999999995 999999999999999998        888876      36999999999999999999999 8999


Q ss_pred             eEEEEEeecCCCCCC
Q 048615          240 RFIKLWWANRDSIPD  254 (634)
Q Consensus       240 R~IkV~wak~~~~~~  254 (634)
                      +.|+|.|+++.....
T Consensus        85 ~~l~V~~a~~~~~~~   99 (116)
T 2lcw_A           85 NPIKVSFATRRADFN   99 (116)
Confidence            999999998765543

>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=99.47  E-value=1.1e-13  Score=123.11  Aligned_cols=78  Identities=18%  Similarity=0.308  Sum_probs=69.0

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCE----EEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEV----VDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I----~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|    ..+++..  .++||||+|.+.++|.+|+..|++ .|+|+.|+|.|+
T Consensus        24 ~~~~l~V~nLp~~-~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a  102 (115)
T 2cpx_A           24 PNKVLYLKNLSPR-VTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG  102 (115)
T ss_dssp             CCSEEEEECCCTT-CCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEc
Confidence            4689999999995 9999999999999998    5666653  358999999999999999999999 899999999999


Q ss_pred             cCCCCC
Q 048615          248 NRDSIP  253 (634)
Q Consensus       248 k~~~~~  253 (634)
                      ++....
T Consensus       103 ~~~~~~  108 (115)
T 2cpx_A          103 KNKKQR  108 (115)
T ss_dssp             CCCSCC
T ss_pred             cCCCCC
Confidence            866543

>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=99.46  E-value=5.3e-14  Score=122.64  Aligned_cols=74  Identities=22%  Similarity=0.380  Sum_probs=66.4

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      ...++|||+|||++ +++++|+++|++|| |.+|+|+.++       |||||+|.+.++|.+|+ .++| .|+||.|+|.
T Consensus        17 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~   93 (100)
T 2j76_E           17 SPPYTAFLGNLPYD-VTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVD   93 (100)
T ss_dssp             ---CEEEESCCSSC-CSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCE
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEE
Confidence            34689999999995 99999999999999 9999998764       69999999999999999 8999 8999999999


Q ss_pred             eecCC
Q 048615          246 WANRD  250 (634)
Q Consensus       246 wak~~  250 (634)
                      |+++.
T Consensus        94 ~a~~~   98 (100)
T 2j76_E           94 VADQA   98 (100)
T ss_dssp             ECCCS
T ss_pred             eccCC
Confidence            99754

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

Probab=99.46  E-value=2.5e-13  Score=116.78  Aligned_cols=75  Identities=21%  Similarity=0.335  Sum_probs=65.0

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCC-eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-RAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg-~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      ..++|||+|||++ +++++|+.+|++||.|.+|.+....+ ||||+|.+.++|.+|+. +++ .|+||.|+|.|+.+..
T Consensus         7 ~~~~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            7 GLRSVFVSGFPRG-VDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQKE   83 (94)
T ss_dssp             TCCEEEEECCCTT-CCHHHHHHHGGGTSCEEEEEECSSSCCEEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCSC
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHhcCCeEEEEEcCCCCcEEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcCC
Confidence            3579999999995 99999999999999999983333222 99999999999999999 999 8999999999986443

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

Probab=99.46  E-value=1.2e-13  Score=119.57  Aligned_cols=76  Identities=18%  Similarity=0.365  Sum_probs=67.7

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ...++|||+|||++ +++++|+.+|++||.|. +.++.  .++||||+|.+.++|.+|++.|+| .|+|+.|+|.|+++.
T Consensus        17 ~~~~~l~V~nL~~~-~t~~~l~~~F~~~G~v~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   94 (97)
T 2e5j_A           17 PLAADVYVGNLPRD-ARVSDLKRALRELGSVP-LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ   94 (97)
T ss_dssp             CCCCEEEEECCCTT-CCHHHHHHHHHHTTCCC-SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCCC
T ss_pred             CCCCEEEEeCCCCc-CcHHHHHHHHHhcCCEE-EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            34689999999995 99999999999999996 55554  468999999999999999999999 899999999999865


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      +
T Consensus        95 ~   95 (97)
T 2e5j_A           95 R   95 (97)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.46  E-value=7.9e-14  Score=124.96  Aligned_cols=76  Identities=17%  Similarity=0.265  Sum_probs=66.2

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeE-----EEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRF-----IKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~-----IkV~wa  247 (634)
                      ...++|||+|||++ +++++|+++|++||.|..|.|+.+ +||||+|.+.++|.+||+.|++ .|+|+.     |+|.++
T Consensus        14 r~~~~l~V~nLp~~-~t~~~l~~~F~~~G~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~   91 (115)
T 3beg_B           14 RSENRVVVSGLPPS-GSWQDLKDHMREAGDVCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   91 (115)
T ss_dssp             ---CCEEEEECCSS-CCTTHHHHHHGGGSCEEEEEECTT-SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEEC
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEecC-CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccC
Confidence            34689999999995 999999999999999999999888 9999999999999999999999 899988     777777


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      .+..
T Consensus        92 ~~~~   95 (115)
T 3beg_B           92 GPRS   95 (115)
T ss_dssp             C---
T ss_pred             CCCC
Confidence            6543

>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=99.45  E-value=4.1e-14  Score=125.91  Aligned_cols=73  Identities=21%  Similarity=0.251  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..|+|+.++      +||||+|.+.++|.+|+ .+++ .|+|+.|+|.|++
T Consensus        25 ~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  102 (114)
T 2cq4_A           25 ARTVFCMQLAAR-IRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQ  102 (114)
T ss_dssp             HTEEEEESCCTT-CCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHH
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecC
Confidence            579999999995 9999999999999999999998653      69999999999999999 9999 8999999999997


Q ss_pred             CC
Q 048615          249 RD  250 (634)
Q Consensus       249 ~~  250 (634)
                      +.
T Consensus       103 ~~  104 (114)
T 2cq4_A          103 AE  104 (114)
T ss_dssp             HH
T ss_pred             CC
Confidence            54

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

Probab=99.45  E-value=6.2e-14  Score=115.44  Aligned_cols=70  Identities=20%  Similarity=0.333  Sum_probs=65.7

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ++|||+|||++ +++++|+++|++||.|..|.++.++      +||||+|.+.++|.+|+..++..++||.|+|.||
T Consensus         1 ~~l~v~nlp~~-~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQ-TTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSS-CCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCCCccCCEEEEEEec
Confidence            58999999995 9999999999999999999998864      6999999999999999999997799999999997

>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=99.45  E-value=1.8e-13  Score=121.53  Aligned_cols=75  Identities=17%  Similarity=0.322  Sum_probs=68.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-cc--------CC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VM--------GN  239 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l--------~g  239 (634)
                      ...++|||+|||++ +++++|+.+|++||.|..|+|+.+     ++||||+|.+.++|.+|+..|+| .|        .+
T Consensus        23 ~~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~  101 (114)
T 1x5o_A           23 QDPTNLYISNLPLS-MDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT  101 (114)
T ss_dssp             CCTTEEEEESCCTT-CCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCC
Confidence            44689999999995 999999999999999999999987     36999999999999999999999 67        58


Q ss_pred             eEEEEEeecC
Q 048615          240 RFIKLWWANR  249 (634)
Q Consensus       240 R~IkV~wak~  249 (634)
                      ++|+|.|+++
T Consensus       102 ~~l~v~~a~p  111 (114)
T 1x5o_A          102 EPLLCKFSGP  111 (114)
T ss_dssp             SCBEEEECCC
T ss_pred             CceeEEccCC
Confidence            8899999974

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

Probab=99.45  E-value=1.7e-13  Score=117.86  Aligned_cols=75  Identities=24%  Similarity=0.336  Sum_probs=68.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEE-EecCCC--eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIY-IPLNSE--RAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~-v~~dkg--~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ..++|||+|||++ +++++|+.+|++||.|..|+ |+.++.  .|||+|.+.++|.+|+..|+| .|+||.|+|.|+++.
T Consensus        14 ~~~~l~V~nlp~~-~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           14 RIRKLQIRNIPPH-LQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             SCCCEEEEEECSS-SCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCCC
T ss_pred             CCCEEEEEcCCCC-CCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCcc
Confidence            3689999999995 99999999999999999994 777754  599999999999999999999 899999999999855

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

Probab=99.44  E-value=9e-14  Score=127.21  Aligned_cols=77  Identities=18%  Similarity=0.265  Sum_probs=69.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--EEEecCC------CeEEEEeCCHHHHHHHHHcCCC-----ccCCe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--IYIPLNS------ERAFVQFSKREEAEAALKSPDA-----VMGNR  240 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-----~l~gR  240 (634)
                      ...++|||+|||++ +++++|+++|++||.|..  |+|++++      |||||+|.+. +|.+|+..|++     .|+||
T Consensus        21 ~~~~~lfV~nL~~~-~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr   98 (131)
T 2m2b_A           21 NANDTIILRNLNPH-STMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGK   98 (131)
T ss_dssp             CCCCEEEECSCCTT-CCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGC
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCE
Confidence            34689999999995 999999999999999976  9998875      7999999999 99999999998     69999


Q ss_pred             EEEEEeecCCCC
Q 048615          241 FIKLWWANRDSI  252 (634)
Q Consensus       241 ~IkV~wak~~~~  252 (634)
                      .|+|.|+++...
T Consensus        99 ~l~V~~a~~~~~  110 (131)
T 2m2b_A           99 TINVEFAKGSKR  110 (131)
T ss_dssp             CCCCEECCCSCC
T ss_pred             EEEEEECCCCCC
Confidence            999999986544

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.44  E-value=7.1e-14  Score=114.80  Aligned_cols=68  Identities=21%  Similarity=0.355  Sum_probs=63.4

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +|||+|||++ +++++|+++|++||.|..|.++.++      +||||+|.+.++|.+|++ +++ .|+|+.|+|.||
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 KIFVGGLSVN-TTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSS-CCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCC-CCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            5899999995 9999999999999999999998764      699999999999999998 888 899999999986

>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=99.44  E-value=2.9e-14  Score=121.23  Aligned_cols=73  Identities=22%  Similarity=0.359  Sum_probs=65.4

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ++|||+|||++ +++++|+++|++||.|.+|+|+.+      ++||||+|.+.+ |.+|+..++| .++|+.|+|.||.+
T Consensus         2 ~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            2 RNIYVGNLVYS-ATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANP   79 (90)
T ss_dssp             EEEEEEEECTT-SSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC--
T ss_pred             cEEEECCCCCC-CCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCC
Confidence            68999999995 999999999999999999999876      469999999999 9999999999 89999999999975


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus        80 ~~   81 (90)
T 2ki2_A           80 KK   81 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            44

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.44  E-value=1.8e-13  Score=129.71  Aligned_cols=73  Identities=16%  Similarity=0.221  Sum_probs=68.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCC--CEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFG--EVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG--~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .++|||+|||++ +++++|+++|++||  .|..|+|+.++      |||||+|.+.++|.+||..|+| .|+||.|+|.|
T Consensus        55 ~~~lfVgnLp~~-~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~  133 (156)
T 3n9u_C           55 RAAVYVGSFSWW-TTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRP  133 (156)
T ss_dssp             -CEEEEECCCTT-CCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEE
Confidence            579999999995 99999999999999  99999999874      5999999999999999999999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      +++
T Consensus       134 a~~  136 (156)
T 3n9u_C          134 ATR  136 (156)
T ss_dssp             CCH
T ss_pred             cCC
Confidence            964

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

Probab=99.43  E-value=1.2e-13  Score=115.45  Aligned_cols=68  Identities=21%  Similarity=0.430  Sum_probs=61.9

Q ss_pred             CEEEEeCCCCCCC------CHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCe-EEEE
Q 048615          177 RTLFVNNVPLKSN------RREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNR-FIKL  244 (634)
Q Consensus       177 ~tLfVgnLp~d~~------te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR-~IkV  244 (634)
                      ++|||+|||+. +      ++++|+.+|++||.|.+|.|++.    ++||||+|.+.++|.+|+..|+| .|+|| .|+|
T Consensus         2 ~~l~V~nLp~~-~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A            2 SVIVVDNVPQV-GPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CEEEEESCCCC-CTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             CEEEEeCCCCC-cHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            69999999995 8      67999999999999999998843    58999999999999999999999 89999 8876


Q ss_pred             E
Q 048615          245 W  245 (634)
Q Consensus       245 ~  245 (634)
                      +
T Consensus        81 ~   81 (81)
T 2krb_A           81 N   81 (81)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.43  E-value=5e-14  Score=131.30  Aligned_cols=117  Identities=19%  Similarity=0.276  Sum_probs=67.1

Q ss_pred             ceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHH
Q 048615          116 SLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREAL  194 (634)
Q Consensus       116 GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L  194 (634)
                      |+||.+|.-++.+ .++..|... ..|...--..             ++..   ........++|||+|||++ +++++|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~-~gg~~~g~~~-------------g~~~---~~~~~~~~~~lfV~nLp~~-~te~dL   63 (139)
T 2hgn_A            2 GSSHHHHHHSSGLVPRGSHMASM-TGGQQMGRGS-------------GDSE---FTVQSTTGHCVHMRGLPYK-ATENDI   63 (139)
T ss_dssp             ------------------------------------------------------------CCCCEECCSCCTT-CCHHHH
T ss_pred             CcccccccCccccchhcccchhc-cCCCCCCCCC-------------CCcc---cCCCCCCCCEEEEeCCCCC-CCHHHH
Confidence            7899999998887 676665543 2232221000             0000   0011223579999999996 999999


Q ss_pred             HHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          195 LSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       195 ~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      +++|++|| |++|+|+.+     ++||||+|.+.++|.+|| .+++ .|+||.|+|.++.+...
T Consensus        64 ~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~~~  125 (139)
T 2hgn_A           64 YNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTGA  125 (139)
T ss_dssp             HHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCSCC
T ss_pred             HHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCCCC
Confidence            99999999 779999876     469999999999999999 7788 89999999999976543

>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=99.42  E-value=2.5e-13  Score=114.40  Aligned_cols=69  Identities=26%  Similarity=0.484  Sum_probs=65.7

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccC----C-------CEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKF----G-------EVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~Fskf----G-------~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      .++|||+|||++ +++++|+++|++|    |       .|.+|++..+++||||+|.+.++|.+|+ .+++ .|+||.|+
T Consensus         6 ~~~l~V~nLp~~-~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~   83 (87)
T 2hzc_A            6 ARRLYVGNIPFG-ITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLK   83 (87)
T ss_dssp             GGEEEEESCCTT-CCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSSSEEEEEESSHHHHHHHG-GGTTCEETTEECE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCCcEEEEEcCCHHHHHHHH-hcCCCEECCeEEE
Confidence            589999999995 9999999999999    8       9999999999999999999999999999 9999 89999999


Q ss_pred             EEe
Q 048615          244 LWW  246 (634)
Q Consensus       244 V~w  246 (634)
                      |..
T Consensus        84 V~r   86 (87)
T 2hzc_A           84 IRR   86 (87)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            973

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.42  E-value=3.9e-13  Score=122.93  Aligned_cols=74  Identities=19%  Similarity=0.113  Sum_probs=66.8

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCe-EEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEeecCCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKSPDA-VMGN--RFIKLWWANRDS  251 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~-AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~wak~~~  251 (634)
                      ..|||+||++. +++++|+.+|++||.|.+|+|+...|| |||+|.+.++|..|++.|+| .|.|  +.|+|.|+++..
T Consensus        26 l~l~V~NL~~~-vt~~~L~~~Fs~yG~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~~  103 (124)
T 2e5i_A           26 LLLSIQNPLYP-ITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTR  103 (124)
T ss_dssp             EEEEEESCCSC-CCHHHHHHHHTTTSCEEEEEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCSC
T ss_pred             EEEEEcCcCCC-CCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCCc
Confidence            35789999995 999999999999999999999776686 99999999999999999999 6776  799999998654

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.42  E-value=1.3e-13  Score=139.55  Aligned_cols=78  Identities=22%  Similarity=0.284  Sum_probs=70.0

Q ss_pred             CCCCEEEEeCCCCCCC---------CHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-cc------
Q 048615          174 KALRTLFVNNVPLKSN---------RREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VM------  237 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~---------te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l------  237 (634)
                      +.+++|||+||+.+ +         ++++|+.+|++||.|.+|+|+.+++||||+|.+.++|+.|++.|+| .|      
T Consensus       132 ~~~rtLfVgnL~~~-~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~  210 (240)
T 3u1l_A          132 KKNKTLYVGGIDGA-LNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDK  210 (240)
T ss_dssp             CCCCEEEEECTTGG-GTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHHHTTCCCCCTTST
T ss_pred             cCCceeecCCCChh-hhcccccccCcHHHHHHHHHccCCEEEEEEECCCCEEEEEeCCHHHHHHHHHHhCCCEEeccccc
Confidence            45789999999995 7         6999999999999999999999999999999999999999999999 67      


Q ss_pred             ------CCeEEEEEeecCCCC
Q 048615          238 ------GNRFIKLWWANRDSI  252 (634)
Q Consensus       238 ------~gR~IkV~wak~~~~  252 (634)
                            .|+.|.|.||+.+..
T Consensus       211 e~~~~~~gr~L~V~wA~~~pn  231 (240)
T 3u1l_A          211 EWDDRREGTGLLVKWANEDPD  231 (240)
T ss_dssp             TGGGGGGSCCCEEEECC----
T ss_pred             cccccCCCCEEEEEEccCCCC
Confidence                  899999999986543

>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=99.42  E-value=8e-14  Score=119.55  Aligned_cols=73  Identities=23%  Similarity=0.308  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.|..+.++.+      ++||||+|.+.++|.+|++.|++ .|+||.|+|.|+
T Consensus        14 ~~~~l~V~nlp~~-~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a   92 (95)
T 2ek1_A           14 GPTVIKVQNMPFT-VSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP   92 (95)
T ss_dssp             -CEEEEEECCCTT-CCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEec
Confidence            3589999999995 999999999999999988777763      36999999999999999999999 899999999998


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      +
T Consensus        93 ~   93 (95)
T 2ek1_A           93 S   93 (95)
T ss_dssp             C
T ss_pred             c
Confidence            6

>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=99.42  E-value=4.5e-13  Score=114.81  Aligned_cols=75  Identities=25%  Similarity=0.367  Sum_probs=61.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~~  250 (634)
                      .+.++|||+|||++ +++++|+++|++||.|.+|+|+.+ +|||||+|.+.++|.++.. ..-.+.|+.|+|.|+++.
T Consensus         9 ~~~~~l~V~~Lp~~-~te~~L~~~F~~~G~i~~v~i~~~srGfaFV~F~~~~~A~~~~~-~~~~~~g~~v~v~~a~~k   84 (89)
T 3d2w_A            9 HHGSKVFVGRCTED-MTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSLCG-EDLIIKGISVHISNAEPK   84 (89)
T ss_dssp             --CCEEEEESCCTT-CCHHHHHHHHTTTSCEEEEECCSSCCSEEEEEESCHHHHHHHTT-CEEEETTEEEEEEECC--
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHhccCCEEEEEEeeCCCCEEEEEECCHHHHHHHcC-CCcccCCEEEEEEEcCCC
Confidence            34689999999996 999999999999999999999886 7899999999999984321 111467999999999754

>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=99.41  E-value=4.6e-13  Score=119.56  Aligned_cols=74  Identities=14%  Similarity=0.193  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCE-EEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEV-VDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I-~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.| ..|+|+.+     ++||||+|.+.++|.+||.. ++ .|+||.|+|.|+
T Consensus        14 ~~~~l~V~nLp~~-~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a   91 (114)
T 2cpy_A           14 AKVCAHITNIPFS-ITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVV   91 (114)
T ss_dssp             CCCEEEEESCCTT-SCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEE
T ss_pred             CccEEEEeCcCCc-CCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEEC
Confidence            4689999999995 9999999999999999 88988875     47999999999999999998 88 899999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      .+.
T Consensus        92 ~~~   94 (114)
T 2cpy_A           92 TLE   94 (114)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            643

>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=99.41  E-value=4.3e-13  Score=128.19  Aligned_cols=75  Identities=23%  Similarity=0.254  Sum_probs=67.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SERAFVQFSKREEAEAALKSPDA-VMGN--RFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~wak~~  250 (634)
                      ..+|||+||++. +++++|+++|++||.|.+|.|...  ++||||+|.+.++|.+|++.|+| .|.|  +.|+|.|+++.
T Consensus        46 vl~l~VgNL~~~-vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A           46 VLRIIVENLFYP-VTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  124 (164)
T ss_dssp             EEEEEECSCCSC-CCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSS
T ss_pred             eEEEEEeCcCCC-CCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCC
Confidence            468999999995 999999999999999999999754  46999999999999999999999 6754  99999999875


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus       125 ~  125 (164)
T 1sjr_A          125 S  125 (164)
T ss_dssp             S
T ss_pred             c
Confidence            4

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.40  E-value=2.5e-13  Score=116.80  Aligned_cols=76  Identities=20%  Similarity=0.320  Sum_probs=66.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      ..++|||+|||++ +++++|+.+|++||.|..+ ...  .++||||+|.+.++|.+|+..++| .|+|+.|+|.|+++..
T Consensus        15 ~~~~l~V~nL~~~-~t~~~l~~~F~~~g~v~~~-~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (96)
T 1fjc_A           15 AARTLLAKNLSFN-ITEDELKEVFEDALEIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKG   92 (96)
T ss_dssp             GGGEEEEESCCSS-CCHHHHHHHHCSEEEECCE-EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHhhCCcEEEe-CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            4689999999995 9999999999999998777 221  247999999999999999999999 8999999999997654


Q ss_pred             C
Q 048615          252 I  252 (634)
Q Consensus       252 ~  252 (634)
                      .
T Consensus        93 ~   93 (96)
T 1fjc_A           93 G   93 (96)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.40  E-value=4e-13  Score=121.02  Aligned_cols=74  Identities=20%  Similarity=0.335  Sum_probs=67.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCC---EEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGE---VVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~---I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      ...++|||+|||++ +++++|+++|++||.   |..|+|+.++     +||||+|.+.++|.+|++ +++ .|+||.|+|
T Consensus        15 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V   92 (118)
T 2db1_A           15 GEGYVVKLRGLPWS-CSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEV   92 (118)
T ss_dssp             CCCCEEEEESCCTT-CCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEE
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEE
Confidence            34689999999995 999999999999999   8999998763     699999999999999999 898 899999999


Q ss_pred             EeecC
Q 048615          245 WWANR  249 (634)
Q Consensus       245 ~wak~  249 (634)
                      .++.+
T Consensus        93 ~~a~~   97 (118)
T 2db1_A           93 FKSHR   97 (118)
T ss_dssp             EEECH
T ss_pred             EECCH
Confidence            99954

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.39  E-value=1e-13  Score=120.60  Aligned_cols=75  Identities=20%  Similarity=0.154  Sum_probs=65.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec------CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL------NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~------dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+.+|++||.|.. .++.      .++||||+|.+.++|.+|++ |++ .|+||.|+|.|+
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 1fj7_A           16 TPFNLFIGNLNPN-KSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   92 (101)
T ss_dssp             CSEEEEEECCCTT-SCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEc
Confidence            4689999999995 999999999999998766 3333      36899999999999999999 999 899999999999


Q ss_pred             cCCCC
Q 048615          248 NRDSI  252 (634)
Q Consensus       248 k~~~~  252 (634)
                      ++...
T Consensus        93 ~~~~~   97 (101)
T 1fj7_A           93 KGRDG   97 (101)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            85543

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.39  E-value=7.7e-13  Score=121.89  Aligned_cols=76  Identities=22%  Similarity=0.270  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCe-EEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SER-AFVQFSKREEAEAALKSPDA-VMGN--RFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~-AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~wak~~  250 (634)
                      -..|||+||++. +++++|+++|++||.|.+|.|+.. ++| |||+|.+.++|.+|++.|+| .|.|  +.|+|.|+++.
T Consensus        28 VL~I~V~NL~~~-vte~~L~~lFs~yG~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~  106 (130)
T 3zzy_A           28 VLRIIVENLFYP-VTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  106 (130)
T ss_dssp             EEEEEEESCCSC-CCHHHHHHHHTTSSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCS
T ss_pred             eEEEEECCCCCC-CCHHHHHHHHhCcCCEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCC
Confidence            357889999995 999999999999999999998764 467 99999999999999999999 6777  99999999865


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus       107 ~l  108 (130)
T 3zzy_A          107 SL  108 (130)
T ss_dssp             SC
T ss_pred             ce
Confidence            43

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.39  E-value=5e-13  Score=116.15  Aligned_cols=71  Identities=21%  Similarity=0.277  Sum_probs=63.0

Q ss_pred             CCEEEEeCCCCCCCCHHH----HHHhhccC-CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREA----LLSHFQKF-GEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~----L~~~Fskf-G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .+.|||+|||+. +++++    |+++|++| |+|.+|.    .|+|||.|.+.++|.+|++.|+| .|.||+|+|.||+.
T Consensus         9 ~T~lYV~NL~~~-~~~~~lk~~L~~lF~~yGG~Vl~Vt----gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~~   83 (96)
T 2diu_A            9 HTLLYVYNLPAN-KDGKSVSNRLRRLSDNCGGKVLSIT----GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTPK   83 (96)
T ss_dssp             SEEEEEESCCTT-SCHHHHHHHHHHHHHTTTCCEEECC----TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSCC
T ss_pred             ceEEEEeCCCCc-CCHHHHHHHHHHHHHHcCCeeEEEe----cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecCC
Confidence            344999999995 99888    55899999 5999983    39999999999999999999999 89999999999985


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      .+
T Consensus        84 ~s   85 (96)
T 2diu_A           84 NR   85 (96)
T ss_dssp             SC
T ss_pred             Cc
Confidence            54

>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=99.38  E-value=1.4e-13  Score=123.21  Aligned_cols=100  Identities=12%  Similarity=0.223  Sum_probs=59.6

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCCCCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNMDPSTK  159 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~~~~~~  159 (634)
                      +....+++.+..+|.++|.|..++++.++  ++++|||||+|.+.++| +||..|||..|+||+|+|.++.++.......
T Consensus        13 Lp~~~te~~L~~~F~~~G~v~~v~i~~d~--~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~~~~~~~~   90 (115)
T 4f25_A           13 LDKSIDNKALYDTFSAFGNILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRKEREAEL   90 (115)
T ss_dssp             CCTTCCHHHHHHHHGGGSCEEEEEEEEET--TEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCCCC-----
T ss_pred             CCCCCCHHHHHHHHhccCCEEEEEEeecC--CCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCcccccccc
Confidence            34456778888888888888777777664  24689999999999999 9999999999999999999987654211100


Q ss_pred             cccccccccCCCCCCCCCEEEEeCCCCCCCCHHH
Q 048615          160 AQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREA  193 (634)
Q Consensus       160 ~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~  193 (634)
                        .        ......++|||+|||++ +|++.
T Consensus        91 --~--------~~~~~~~~lyv~Nl~~~-~T~~a  113 (115)
T 4f25_A           91 --G--------ARAKEFTNVYIKNFGPG-STRAA  113 (115)
T ss_dssp             ----------------------------------
T ss_pred             --c--------cccCCCCceEeCCCCCC-ccccc
Confidence              0        01123468999999995 77653

>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=99.38  E-value=5.9e-13  Score=123.57  Aligned_cols=73  Identities=18%  Similarity=0.302  Sum_probs=67.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCC---EEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGE---VVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~---I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      ...++|||+|||++ +++++|+++|++||.   |..|+|+.++     |||||+|.+.++|.+|++ +++ .|+||.|+|
T Consensus        42 ~~~~~lfVgnLp~~-~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V  119 (136)
T 2hgl_A           42 GEGFVVKLRGLPWS-CSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEV  119 (136)
T ss_dssp             CTTCEEEEESCCTT-CCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEE
Confidence            34689999999995 999999999999999   8899998764     699999999999999999 999 899999999


Q ss_pred             Eeec
Q 048615          245 WWAN  248 (634)
Q Consensus       245 ~wak  248 (634)
                      .++.
T Consensus       120 ~~a~  123 (136)
T 2hgl_A          120 FKSH  123 (136)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            9985

>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=99.37  E-value=4.2e-13  Score=121.46  Aligned_cols=74  Identities=24%  Similarity=0.408  Sum_probs=65.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ...++|||+|||++ +++++|+++|++||.|..+.++.+      ++||||+|.+.++|.+||. +++ .|+||.|+|.|
T Consensus        23 ~~~~~l~V~nLp~~-~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~  100 (124)
T 1wel_A           23 EAGFCVYLKGLPFE-AENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHP  100 (124)
T ss_dssp             CCCCEEEEECCCTT-CCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEE
T ss_pred             CCCcEEEEeCCCCC-CCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEE
Confidence            44689999999995 999999999999999987444432      3699999999999999999 999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      +.+
T Consensus       101 a~~  103 (124)
T 1wel_A          101 ITK  103 (124)
T ss_dssp             ECH
T ss_pred             CCH
Confidence            964

>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=99.36  E-value=2.6e-13  Score=111.30  Aligned_cols=69  Identities=22%  Similarity=0.359  Sum_probs=62.7

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      +|||+|||++ +++++|+++|++||.|.+|.++.+      ++||||+|.+.++|.+|++..+..++|+.|+|.||
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 KIFVGGLSPD-TPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSS-CCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEC
Confidence            5999999995 999999999999999999999875      46999999999999999997333899999999986

>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=99.35  E-value=9e-13  Score=132.38  Aligned_cols=73  Identities=14%  Similarity=0.149  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCC--CEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFG--EVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG--~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .++|||+|||++ +++++|+++|++||  .|.+|+|+.++      +||||+|.+.++|.+||+.|++ .|+||.|+|.|
T Consensus        68 ~~~lfVgnL~~~-~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           68 RIALYIGNLTWW-TTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             -CEEEEESCCTT-CCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             ccEEEEeCCCCC-CCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            579999999995 99999999999999  99999999874      5999999999999999999999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      +++
T Consensus       147 a~~  149 (229)
T 3q2s_C          147 VNK  149 (229)
T ss_dssp             CCH
T ss_pred             CCC
Confidence            853

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

Probab=99.34  E-value=1.6e-12  Score=125.57  Aligned_cols=76  Identities=18%  Similarity=0.258  Sum_probs=70.2

Q ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          173 QKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       173 ~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ....++|||+|||++ +++++|+++|++||.|..|.|+.+     ++||||+|.+.++|.+|++.+++ .|+|+.|+|.|
T Consensus        85 ~~~~~~l~V~nLp~~-~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~  163 (177)
T 2f3j_A           85 VETGAKLLVSNLDFG-VSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  163 (177)
T ss_dssp             CTTCEEEEEECCCSC-CCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEE
T ss_pred             CCCCCEEEEeCCCCC-CCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            345789999999995 999999999999999999999875     47999999999999999999999 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      +..
T Consensus       164 a~~  166 (177)
T 2f3j_A          164 VAS  166 (177)
T ss_dssp             ESS
T ss_pred             ecC
Confidence            974

>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=99.34  E-value=6e-13  Score=117.48  Aligned_cols=73  Identities=19%  Similarity=0.333  Sum_probs=66.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCC---EEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGE---VVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~---I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      ..++|||+|||++ +++++|+++|+.||.   |..|+|+.++     |||||+|.+.++|.+|+. +++ .|+||.|+|.
T Consensus        10 ~~~~l~V~nLp~~-~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~   87 (107)
T 2lmi_A           10 DVFLIRAQGLPWS-CTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVY   87 (107)
T ss_dssp             SCCEEEEECCCSS-CCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCE
T ss_pred             CccEEEEeCCCCC-CCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEE
Confidence            4689999999995 999999999999998   8999998763     699999999999999999 888 8999999999


Q ss_pred             eecC
Q 048615          246 WANR  249 (634)
Q Consensus       246 wak~  249 (634)
                      |+.+
T Consensus        88 ~a~~   91 (107)
T 2lmi_A           88 EINN   91 (107)
T ss_dssp             ECCH
T ss_pred             ECCH
Confidence            9864

>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=99.34  E-value=3.4e-12  Score=124.87  Aligned_cols=116  Identities=14%  Similarity=0.193  Sum_probs=85.1

Q ss_pred             CHHHH-HHHhcc--CCceeCCEEEEEccCcccCCCCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhcc
Q 048615          124 TKEDR-EALPSL--QGSYRRGKRIIEGDAIQKNMDPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQK  200 (634)
Q Consensus       124 ~~e~A-~Ai~~m--nG~~l~GR~I~V~~a~~k~~~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~Fsk  200 (634)
                      +.+.+ .|+...  ....+.+...+|......+.+..    .+..+     .....++|||+|||++ +++++|+.+|++
T Consensus        63 d~~~I~~Al~~S~~~~lev~ed~~~vrR~~~~p~p~~----~~~~~-----~~~~~~~l~V~nLp~~-~t~~~L~~~F~~  132 (193)
T 2voo_A           63 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEV----TDEYK-----NDVKNRSVYIKGFPTD-ATLDDIKEWLED  132 (193)
T ss_dssp             CHHHHHHHHHTCSSCCEEECTTSSEEEECTTSCCCCC----CHHHH-----HHHHHTEEEEECCCTT-CCHHHHHHHHTT
T ss_pred             CHHHHHHHHhhcccceEEEecccceEEecccCCCccc----chhhh-----hccccCEEEecCCCCc-CCHHHHHHHHhc
Confidence            45666 888887  55566555444443311111000    00000     0012479999999996 999999999999


Q ss_pred             CCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          201 FGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       201 fG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      ||.|..|+|+++     +|||||+|.+.++|.+|+..++..++||.|+|.|++.
T Consensus       133 ~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          133 KGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD  186 (193)
T ss_dssp             SCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEETTT
T ss_pred             CCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEhHH
Confidence            999999999875     3799999999999999999887799999999999864

>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=99.34  E-value=6.3e-13  Score=123.02  Aligned_cols=77  Identities=17%  Similarity=0.261  Sum_probs=66.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE--------EEEec---CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVD--------IYIPL---NSERAFVQFSKREEAEAALKSPDA-VMGNRF  241 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~--------v~v~~---dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~  241 (634)
                      .+.++|||+|||++ +++++|+.+|++||.|..        |++..   .++||||+|.+.++|.+|+..|+| .|+||.
T Consensus        43 ~~~~~l~V~nLp~~-~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~  121 (143)
T 3egn_A           43 EPNCRIYVKNLAKH-VQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKP  121 (143)
T ss_dssp             SCCSEEEEEEECTT-CCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            34689999999995 999999999999998865        33332   357999999999999999999999 899999


Q ss_pred             EEEEeecCCC
Q 048615          242 IKLWWANRDS  251 (634)
Q Consensus       242 IkV~wak~~~  251 (634)
                      |+|.|++...
T Consensus       122 l~V~~a~~~~  131 (143)
T 3egn_A          122 MVVQFARSAR  131 (143)
T ss_dssp             CEEEECCCSC
T ss_pred             EEEEECCCCC
Confidence            9999997544

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.34  E-value=1.5e-12  Score=116.21  Aligned_cols=71  Identities=15%  Similarity=0.240  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|||+|||++ +++++|+++|++| .|..|+|+.+     +|||||+|.+.++|.+|| .+++ .|+||.|.|.++.+
T Consensus        16 ~~~v~V~nLp~~-~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~   92 (109)
T 2dnn_A           16 DLYVSVHGMPFS-AMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATE   92 (109)
T ss_dssp             HHEEEEECCCSS-CCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCH
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCc
Confidence            479999999995 9999999999999 8999999875     479999999999999999 6888 89999999998853

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.32  E-value=1.1e-12  Score=114.28  Aligned_cols=72  Identities=21%  Similarity=0.336  Sum_probs=66.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|||+|||++ +++++|+.+|++||.|..|+|+.++     +||||+|.+.++|.+|+.  ++ .|+|+.|.|.|+.+
T Consensus         9 ~~~l~V~nLp~~-~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a~~   85 (102)
T 2xs2_A            9 PNTVFVGGIDVR-MDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIR   85 (102)
T ss_dssp             EEEEEEECCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEEEE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEECCc
Confidence            589999999995 9999999999999999999999863     799999999999999999  77 89999999999974


Q ss_pred             C
Q 048615          250 D  250 (634)
Q Consensus       250 ~  250 (634)
                      .
T Consensus        86 ~   86 (102)
T 2xs2_A           86 K   86 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.28  E-value=5e-12  Score=115.84  Aligned_cols=73  Identities=27%  Similarity=0.521  Sum_probs=64.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEE--EEEEecC-----CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVV--DIYIPLN-----SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~--~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++| .|+  .|+|+.+     +|||||+|.+.++|.+|++..+..|+||.|+|.++
T Consensus        41 ~~~~lfVgnLp~~-~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~~a  118 (126)
T 2hgm_A           41 NDGFVRLRGLPFG-CTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKS  118 (126)
T ss_dssp             SCCEEEEECCCTT-CCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
Confidence            3579999999995 9999999999999 677  8999876     47999999999999999996444899999999988


Q ss_pred             cC
Q 048615          248 NR  249 (634)
Q Consensus       248 k~  249 (634)
                      .+
T Consensus       119 ~~  120 (126)
T 2hgm_A          119 SQ  120 (126)
T ss_dssp             CH
T ss_pred             CH
Confidence            53

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

Probab=99.26  E-value=6.7e-12  Score=111.95  Aligned_cols=71  Identities=18%  Similarity=0.332  Sum_probs=61.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---------CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---------SERAFVQFSKREEAEAALKSPDAVMGNRFIKLW  245 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---------kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~  245 (634)
                      ..++|||+|||++ +++++|+++|++||.|. +.++.+         ++||||+|.+.++|.+|++.+++ ++|+.|.+.
T Consensus         7 ~~~~lfVgnLp~~-~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~-~~G~~~~~~   83 (114)
T 2dnl_A            7 GSRKVFVGGLPPD-IDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE-EDGKLYLCV   83 (114)
T ss_dssp             CCCCEEEECCCTT-CCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE-ETTEEEEEE
T ss_pred             CCCEEEEcCCCCC-CCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh-cCCcEEEec
Confidence            4689999999995 99999999999999999 777653         57999999999999999999854 788888887


Q ss_pred             eec
Q 048615          246 WAN  248 (634)
Q Consensus       246 wak  248 (634)
                      .+.
T Consensus        84 ~~~   86 (114)
T 2dnl_A           84 SSP   86 (114)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            654

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.26  E-value=4.6e-12  Score=115.58  Aligned_cols=72  Identities=22%  Similarity=0.406  Sum_probs=64.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCE----EEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEV----VDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I----~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      ..++|||+|||++ +++++|+++|++||.|    ..|+|+.+     +|||||+|.+.++|.+||+. ++ .|+||.|+|
T Consensus        22 ~~~~v~V~nLp~~-~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V   99 (123)
T 2dha_A           22 NQVIVRMRGLPFT-ATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIEL   99 (123)
T ss_dssp             SCCEEEECSCCTT-CCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEE
Confidence            3589999999995 9999999999999986    58888875     36999999999999999997 77 899999999


Q ss_pred             Eeec
Q 048615          245 WWAN  248 (634)
Q Consensus       245 ~wak  248 (634)
                      ..+.
T Consensus       100 ~~a~  103 (123)
T 2dha_A          100 FRST  103 (123)
T ss_dssp             EEEC
T ss_pred             EECC
Confidence            9885

>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=99.23  E-value=5.2e-11  Score=105.90  Aligned_cols=77  Identities=23%  Similarity=0.275  Sum_probs=65.3

Q ss_pred             CCCCEEEEeCCCCCCCC-----------HHHHHHhhccCCCEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          174 KALRTLFVNNVPLKSNR-----------REALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~t-----------e~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      .+.++|+|.||... ..           +++|+++|++||.|.+|.|..  .+|||||+|.+.++|.+|+..|+| .|+|
T Consensus        13 ~~s~~l~l~Nl~~~-~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~g   91 (112)
T 2dit_A           13 RHERVVIIKNMFHP-MDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGG   91 (112)
T ss_dssp             CSCCEEEEESSCCT-THHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETT
T ss_pred             CCceEEEEEcCCCH-HHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecCCCCEEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34689999999442 22           579999999999999997642  258999999999999999999999 8999


Q ss_pred             eEEEEEeecCCC
Q 048615          240 RFIKLWWANRDS  251 (634)
Q Consensus       240 R~IkV~wak~~~  251 (634)
                      |.|+|.|+.+..
T Consensus        92 r~l~v~~a~~~~  103 (112)
T 2dit_A           92 RQITAQAWDGTT  103 (112)
T ss_dssp             EECEEEECCSCC
T ss_pred             cEEEEEEeCCCC
Confidence            999999997543

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.22  E-value=2.2e-11  Score=107.87  Aligned_cols=75  Identities=20%  Similarity=0.274  Sum_probs=65.6

Q ss_pred             CCCEEEEeCCCC--C--CCCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEE
Q 048615          175 ALRTLFVNNVPL--K--SNRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSPDA-VMGNRFI  242 (634)
Q Consensus       175 ~~~tLfVgnLp~--d--~~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~I  242 (634)
                      +.++|+|.||..  +  .-.+++|+++|++||.|.+|.|+.+       +|||||+|.+.++|.+|++.|+| .++||.|
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i   86 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVV   86 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEE
Confidence            368999999962  1  1268999999999999999999875       46999999999999999999999 8999999


Q ss_pred             EEEeecC
Q 048615          243 KLWWANR  249 (634)
Q Consensus       243 kV~wak~  249 (634)
                      +|.|+.+
T Consensus        87 ~v~~a~~   93 (105)
T 2pe8_A           87 KACFYNL   93 (105)
T ss_dssp             EEEECCH
T ss_pred             EEEEcCH
Confidence            9999964

>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=99.20  E-value=1.3e-10  Score=101.02  Aligned_cols=86  Identities=21%  Similarity=0.320  Sum_probs=74.2

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        .+ .++|||+|.++.+|++|+.  +|.
T Consensus        10 ~~~~~~~~l~V-~nlp~~~t-~~~l~~~f~~~G~v~~v~i~~~~~--------~~-~g~afV~f~~~~~a~~A~~~l~g~   78 (103)
T 2cq3_A           10 ESKSTPKRLHV-SNIPFRFR-DPDLRQMFGQFGKILDVEIIFNER--------GS-KGFGFVTFENSADADRAREKLHGT   78 (103)
T ss_dssp             CCSCCCCEEEE-ESCCTTCC-HHHHHHHGGGTSCEEEEEEECCTT--------TT-CCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC--------CC-cEEEEEEECCHHHHHHHHHHhCCC
Confidence            45677899999 89999997 999999999999999999876531        12 2799999999999999995  799


Q ss_pred             ccCCceeEEEEeCCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~~  555 (634)
                      .|.|+.|++.|..+.....
T Consensus        79 ~~~g~~l~v~~a~~~~~~~   97 (103)
T 2cq3_A           79 VVEGRKIEVNNATARVMTN   97 (103)
T ss_dssp             EETTEECEEEECCSSCCCC
T ss_pred             EECCEEEEEEEcccCCCCC
Confidence            9999999999998877654

>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=99.19  E-value=5.6e-11  Score=99.55  Aligned_cols=75  Identities=21%  Similarity=0.306  Sum_probs=68.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH---cCC
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL---SGK  536 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~---~g~  536 (634)
                      -|...++|+| ++||..++ +++|+++|.+||+|.+|.+....             ++|||+|.++.+|++|+.   +|.
T Consensus         8 ~~~~~~~l~V-~~l~~~~t-~~~l~~~f~~~G~i~~~~~~~~k-------------g~afV~f~~~~~A~~a~~~l~~~~   72 (85)
T 2ytc_A            8 EDKTITTLYV-GGLGDTIT-ETDLRNHFYQFGEIRTITVVQRQ-------------QCAFIQFATRQAAEVAAEKSFNKL   72 (85)
T ss_dssp             SCSSCCCEEE-ECCTTTSC-HHHHHHHHHTTSCEEEEEEEGGG-------------TEEEEEESSHHHHHHHHHTTTTTC
T ss_pred             CCCCccEEEE-cCCCCCCC-HHHHHHHHHhCCCEeEEEEECCC-------------CEEEEEECCHHHHHHHHHHhcCCe
Confidence            4677899999 89999997 99999999999999999998765             799999999999999996   789


Q ss_pred             ccCCceeEEEEeC
Q 048615          537 SWQGHDLQFTWLM  549 (634)
Q Consensus       537 ~~~g~~l~l~W~~  549 (634)
                      .|.|+.|++.|.+
T Consensus        73 ~~~g~~l~v~~ak   85 (85)
T 2ytc_A           73 IVNGRRLNVKWGR   85 (85)
T ss_dssp             EETTEECCEEECC
T ss_pred             eECCCEEEEEecC
Confidence            9999999999964

>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=99.19  E-value=4.9e-11  Score=104.12  Aligned_cols=80  Identities=28%  Similarity=0.359  Sum_probs=67.4

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..|+|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .++|||+|.++.+|++|+.  +|..|.|
T Consensus        18 ~gt~lfV-~nLp~~~t-e~~L~~~F~~~G~I~~v~i~~d~~------tg~~-kG~afV~f~~~~~A~~Ai~~lng~~~~g   88 (99)
T 4fxv_A           18 QGTNLIV-NYLPQNMT-QDELRSLFSSIGEVESAKLIRDKV------AGHS-LGYGFVNYVTAKDAERAINTLNGLRLQS   88 (99)
T ss_dssp             CCSEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEEECSS------SCCE-EEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEeEeeecCC------CCcc-cccEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3678999 89999998 999999999999999999875431      0011 2689999999999999984  6999999


Q ss_pred             ceeEEEEeCCC
Q 048615          541 HDLQFTWLMPS  551 (634)
Q Consensus       541 ~~l~l~W~~~~  551 (634)
                      +.|++.|.+|+
T Consensus        89 r~l~V~~AkPS   99 (99)
T 4fxv_A           89 KTIKVSYARPS   99 (99)
T ss_dssp             EECEEEECCBC
T ss_pred             EEEEEEEeeCC
Confidence            99999998763

>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=99.17  E-value=1.6e-10  Score=101.68  Aligned_cols=80  Identities=10%  Similarity=0.108  Sum_probs=70.0

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGK  536 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~  536 (634)
                      ..-.++|+| ++||..++ +++|+++|.+||+|.+|.+...+             ++|||+|.++.+|++|+.    ++.
T Consensus        12 ~~p~~~l~V-~nLp~~~t-e~~L~~~F~~fG~v~~v~i~~~k-------------g~aFVef~~~~~A~~Ai~~l~~~~~   76 (101)
T 2cq1_A           12 GAPSRVLHI-RKLPGEVT-ETEVIALGLPFGKVTNILMLKGK-------------NQAFLELATEEAAITMVNYYSAVTP   76 (101)
T ss_dssp             SSCCSEEEE-ESCCTTCC-HHHHHHTTTTTSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHHHSCC
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEECCC-------------CEEEEEECCHHHHHHHHHHhccCCc
Confidence            344678999 89999997 99999999999999999987765             799999999999999986    367


Q ss_pred             ccCCceeEEEEeCCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~~  555 (634)
                      .|.|+.|.+.|..+.....
T Consensus        77 ~~~Gr~l~V~~a~~~~~~~   95 (101)
T 2cq1_A           77 HLRNQPIYIQYSNHKELKT   95 (101)
T ss_dssp             EETTEECEEEECSCSSCCC
T ss_pred             eECCcEEEEEEcCcccCcC
Confidence            8999999999988776553

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.17  E-value=1.5e-10  Score=101.75  Aligned_cols=63  Identities=24%  Similarity=0.452  Sum_probs=56.1

Q ss_pred             CCCHHHHHHhhccCCCEEEEEEec-CCCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecCCC
Q 048615          188 SNRREALLSHFQKFGEVVDIYIPL-NSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANRDS  251 (634)
Q Consensus       188 ~~te~~L~~~FskfG~I~~v~v~~-dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~~~  251 (634)
                      .+++++|+++|++||.|.+|+|+. .+|||||+|.+.++|..|++.+++ +.|++|+|.|+++..
T Consensus        28 ~~te~~L~~~F~~~G~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~~~-~~g~~l~V~~a~~~~   91 (100)
T 2d9o_A           28 GYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFATVKAAELAVQNEVG-LVDNPLKISWLEGQP   91 (100)
T ss_dssp             SCCHHHHHHHHHTTSCEEEEEEESSSSSEEEEEESCHHHHHHHHHTCCB-CSSSBCEEECSSCCC
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEccCCCCEEEEEECCHHHHHHHHHhcCC-CCCCeEEEEEccCCC
Confidence            389999999999999999999984 568999999999999999999655 578999999997554

>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=99.16  E-value=2.3e-10  Score=99.48  Aligned_cols=87  Identities=20%  Similarity=0.317  Sum_probs=74.2

Q ss_pred             ccccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c
Q 048615          457 RYKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S  534 (634)
Q Consensus       457 ~~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~  534 (634)
                      ...-+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        .++ +++||+|.+..+|++|+.  +
T Consensus         8 ~~~~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------~~~-g~afV~f~~~~~a~~A~~~l~   76 (103)
T 2cqi_A            8 MMEDDGQPRTLYV-GNLSRDVT-EVLILQLFSQIGPCKSCKMITEHT--------SND-PYCFVEFYEHRDAAAALAAMN   76 (103)
T ss_dssp             CCCCSCCCCEEEE-ESCCTTCC-HHHHHHHHHHHSCEEEEEEECCCC--------SSC-CEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCCCCCEEEE-eCCCccCC-HHHHHHHHHhcCCEeEEEEEecCC--------CCC-CEEEEEECCHHHHHHHHHHhC
Confidence            3456777899999 89999997 999999999999999999876531        122 799999999999999995  6


Q ss_pred             CCccCCceeEEEEeCCCCCC
Q 048615          535 GKSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       535 g~~~~g~~l~l~W~~~~~~~  554 (634)
                      |..|.|+.|++.|..+....
T Consensus        77 g~~~~g~~l~V~~a~~~~~~   96 (103)
T 2cqi_A           77 GRKILGKEVKVNWATTPSSQ   96 (103)
T ss_dssp             TEEETTEEEEEEECCCTTCC
T ss_pred             CCCcCCCeEEEEECCCCccc
Confidence            99999999999998886543

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

Probab=99.15  E-value=1.6e-11  Score=105.46  Aligned_cols=73  Identities=10%  Similarity=0.075  Sum_probs=64.2

Q ss_pred             CCccccccccccceeeec-ceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhcc-CCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIG-SSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSL-QGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig-~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~m-nG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.++.+|.++| .|..++.++++.++.++|||||+|.+.++| +||..| |+..++||+|+|.++.++.
T Consensus         9 Lp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~~~~   84 (91)
T 2lxi_A            9 LPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPKP   84 (91)
T ss_dssp             CCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCCSCC
T ss_pred             CCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcCCCC
Confidence            555678899999999999 788888888888888999999999999999 999887 4678999999999998664

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.15  E-value=7.9e-11  Score=104.58  Aligned_cols=80  Identities=11%  Similarity=0.160  Sum_probs=71.1

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c--C
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S--G  535 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~--g  535 (634)
                      .+...++|+| ++||..++ +++|+++|.+||+|.+|.+..++             ++|||+|.++.+|++|+.  +  |
T Consensus        12 ~~~~~~~LfV-~nLp~~vt-e~dL~~lF~~fG~V~~v~i~~~k-------------GfaFVeF~~~~~A~~Ai~~l~~~~   76 (105)
T 1sjq_A           12 SGVPSRVIHI-RKLPIDVT-EGEVISLGLPFGKVTNLLMLKGK-------------NQAFIEMNTEEAANTMVNYYTSVT   76 (105)
T ss_dssp             CCCCCCEEEE-CSCCTTSC-HHHHHHHHHHHCCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHTTSC
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEcCC-------------CEEEEEECCHHHHHHHHHHhccCC
Confidence            4667899999 89999997 99999999999999999998765             799999999999999986  3  5


Q ss_pred             CccCCceeEEEEeCCCCCC
Q 048615          536 KSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       536 ~~~~g~~l~l~W~~~~~~~  554 (634)
                      ..|.|+.|++.|.++....
T Consensus        77 ~~l~Gr~l~V~~A~~~~~~   95 (105)
T 1sjq_A           77 PVLRGQPIYIQFSNHKELK   95 (105)
T ss_dssp             CEETTEECCBCCCSSSSCC
T ss_pred             ceECCEEEEEEEcCCCCCC
Confidence            7899999999998876554

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.15  E-value=4.8e-11  Score=109.44  Aligned_cols=71  Identities=10%  Similarity=0.161  Sum_probs=63.0

Q ss_pred             CEEEEeCC----CCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCC----HHH----HHHHHH--cCCC-
Q 048615          177 RTLFVNNV----PLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSK----REE----AEAALK--SPDA-  235 (634)
Q Consensus       177 ~tLfVgnL----p~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s----~e~----A~~Ai~--~lng-  235 (634)
                      +.|||+||    |+. +++.+|+++|+.||+|.+|.++.|+      |||||+|.+    .++    |.+|+.  .++| 
T Consensus         3 ~kI~VgnL~~~~~~~-tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~   81 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTN-IQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGC   81 (136)
T ss_dssp             CEEEEEESSSSCCCC-CCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCE
T ss_pred             cEEEEeCCCCCCCCC-CCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCC
Confidence            58999999    994 9999999999999999999999986      699999996    333    899998  7899 


Q ss_pred             ccCCeEEEEEeec
Q 048615          236 VMGNRFIKLWWAN  248 (634)
Q Consensus       236 ~l~gR~IkV~wak  248 (634)
                      .|+||.|+|.+.+
T Consensus        82 ~I~Gr~irV~ln~   94 (136)
T 2j8a_A           82 FIMGFKFEVILNK   94 (136)
T ss_dssp             EETTEEEEEEECC
T ss_pred             eecCcEEEEEECc
Confidence            8999999999875

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.15  E-value=2.2e-10  Score=99.61  Aligned_cols=85  Identities=15%  Similarity=0.170  Sum_probs=72.2

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+.         ....++|||+|.+..+|++|+.  +|.
T Consensus        10 ~~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~---------g~~~g~afV~f~~~~~A~~A~~~l~g~   78 (103)
T 2d9p_A           10 ITRYQVVNLYV-KNLDDGID-DERLRKAFSPFGTITSAKVMMEG---------GRSKGFGFVCFSSPEEATKAVTEMNGR   78 (103)
T ss_dssp             CCCSSCCCEEE-ECCCTTCC-HHHHHHTTTTTSCEEEEEEEECS---------SSEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             cCCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEcCC---------CCcCEEEEEEECCHHHHHHHHHHhCCC
Confidence            34567899999 89999997 99999999999999999987531         0112699999999999999995  799


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|++.|..+....
T Consensus        79 ~~~g~~l~V~~a~~~~~~   96 (103)
T 2d9p_A           79 IVATKPLYVALAQRKEER   96 (103)
T ss_dssp             BSSSSBCEEEECSSCCCC
T ss_pred             EeCCcEEEEEEecccccC
Confidence            999999999999887654

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.14  E-value=3.3e-10  Score=98.97  Aligned_cols=86  Identities=20%  Similarity=0.329  Sum_probs=72.6

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCC-ccccCCCCCCCCCCceEEEEecChHHHHHHHH---cC
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDG-EVLEGDNGSDASKNCQVRVSFTTRRSAERAFL---SG  535 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~-~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~---~g  535 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+ ..       .....++|||+|.+..+|++|+.   +|
T Consensus        11 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~~~   81 (107)
T 2cph_A           11 KKQTTSKILV-RNIPFQAN-QREIRELFSTFGELKTVRLPKKMTG-------TGAHRGFGFVDFITKQDAKKAFNALCHS   81 (107)
T ss_dssp             CSSCCCCEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCCCCSS-------SCSSCSEEEEEESSHHHHHHHHHHHHTC
T ss_pred             cCCCCCEEEE-eCCCCcCC-HHHHHHHHHccCCeEEEEEecCCCC-------CCCcCceEEEEECCHHHHHHHHHHhccC
Confidence            4667899999 89999997 9999999999999999998755 21       11112799999999999999985   79


Q ss_pred             CccCCceeEEEEeCCCCCC
Q 048615          536 KSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       536 ~~~~g~~l~l~W~~~~~~~  554 (634)
                      ..|.|+.|++.|..+....
T Consensus        82 ~~~~g~~l~v~~a~~~~~~  100 (107)
T 2cph_A           82 THLYGRRLVLEWADSEVTV  100 (107)
T ss_dssp             CBSSSCBCEEEECCCCCCC
T ss_pred             CeECCCEEEEEeCCCCCCC
Confidence            9999999999999887654

>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=99.14  E-value=2.5e-10  Score=98.73  Aligned_cols=79  Identities=19%  Similarity=0.241  Sum_probs=70.3

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ...+++|+| ++||..++ +++|+++|.+||+|..|.+....             ++|||+|.++.+|++|+.  +|..|
T Consensus        12 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~~~~~k-------------g~afV~f~~~~~a~~a~~~l~g~~~   76 (99)
T 2cpj_A           12 FTQRSRLFV-GNLPPDIT-EEEMRKLFEKYGKAGEVFIHKDK-------------GFGFIRLETRTLAEIAKVELDNMPL   76 (99)
T ss_dssp             CCCTTEEEE-ESCCTTCC-HHHHHHHTSTTCCCSEEEEETTT-------------TEEEEECSSSHHHHHHHHHHTTCCB
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHhhcCCeEEEEEecCC-------------CEEEEEECCHHHHHHHHHHhCCCEe
Confidence            345689999 89999997 99999999999999999998665             799999999999999984  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        77 ~g~~l~v~~a~~~~~~   92 (99)
T 2cpj_A           77 RGKQLRVRFACHSASL   92 (99)
T ss_dssp             TTBCCEEEESSCCSCC
T ss_pred             CCceEEEEEcCCCCCC
Confidence            9999999998876543

>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=99.14  E-value=3.4e-10  Score=97.51  Aligned_cols=77  Identities=17%  Similarity=0.301  Sum_probs=69.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|.+|.+....             .+|||+|.+..+|++|+.  +|..|.
T Consensus        15 ~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~v~~~~~~-------------g~afV~f~~~~~A~~A~~~l~g~~~~   79 (97)
T 1why_A           15 NPTTRLWV-GGLGPNTS-LAALAREFDRFGSIRTIDHVKGD-------------SFAYIQYESLDAAQAACAKMRGFPLG   79 (97)
T ss_dssp             CCCSCEEE-ECCCSSCC-HHHHHHHHHTTSCEEEEEECSSS-------------CCEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeeEEEEeCCC-------------CEEEEEECCHHHHHHHHHHHCCCEeC
Confidence            34689999 89999997 99999999999999999998654             699999999999999986  699999


Q ss_pred             --CceeEEEEeCCCCC
Q 048615          540 --GHDLQFTWLMPSSS  553 (634)
Q Consensus       540 --g~~l~l~W~~~~~~  553 (634)
                        |+.|++.|..+..+
T Consensus        80 ~~g~~l~V~~a~~~~~   95 (97)
T 1why_A           80 GPDRRLRVDFAKSGPS   95 (97)
T ss_dssp             SSSCBCEEEECCCCCC
T ss_pred             CCCcEEEEEECCCCCC
Confidence              99999999988765

>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=99.13  E-value=4.6e-10  Score=99.19  Aligned_cols=76  Identities=17%  Similarity=0.164  Sum_probs=66.9

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c--CCccC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S--GKSWQ  539 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~--g~~~~  539 (634)
                      .++|+| ++||..++ +++|+++|.+||+|.+|.+...+             ++|||+|.+..+|++|+.  +  +..|.
T Consensus        15 ~~~l~V-~nLp~~~t-e~~L~~~F~~fG~V~~v~i~~~k-------------g~aFVef~~~~~A~~Ai~~l~~~~~~i~   79 (104)
T 1wex_A           15 SPVVHV-RGLCESVV-EADLVEALEKFGTICYVMMMPFK-------------RQALVEFENIDSAKECVTFAADVPVYIA   79 (104)
T ss_dssp             CSEEEE-ESCCSSCC-HHHHHHHHTTTSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHHHSCCBSS
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHhCCCEEEEEEECCC-------------CEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            578999 89999997 99999999999999999987655             799999999999999986  3  44689


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+....
T Consensus        80 Gr~l~V~~a~~~~~~   94 (104)
T 1wex_A           80 GQQAFFNYSTSKRIT   94 (104)
T ss_dssp             SSBCEEEECSSSSCC
T ss_pred             CEEEEEEEccCcccc
Confidence            999999998876543

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.13  E-value=4.1e-10  Score=99.92  Aligned_cols=87  Identities=15%  Similarity=0.226  Sum_probs=72.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..
T Consensus        11 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~   81 (115)
T 2dgo_A           11 DTSNHFHVFV-GDLSPEIT-TEDIKAAFAPFGRISDARVVKDMA-------TGKSKGYGFVSFFNKWDAENAIQQMGGQW   81 (115)
T ss_dssp             CSTTCEEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TCCEEEEEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCCCcEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEEcCC-------CCCcceEEEEEECCHHHHHHHHHHhCCCE
Confidence            4556889999 89999997 999999999999999999875431       01112699999999999999995  6999


Q ss_pred             cCCceeEEEEeCCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~~  555 (634)
                      |.|+.|++.|..+.....
T Consensus        82 ~~g~~l~V~~a~~~~~~~   99 (115)
T 2dgo_A           82 LGGRQIRTNWATRKPPAP   99 (115)
T ss_dssp             ETTEECEEEESSCCCCCS
T ss_pred             ECCEEEEEEEccCCCCCC
Confidence            999999999998877653

>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=99.13  E-value=1.6e-10  Score=101.73  Aligned_cols=80  Identities=19%  Similarity=0.345  Sum_probs=71.9

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.+|.+....             ++|||+|.++.+|++|+.  +|..
T Consensus        21 ~~~~~~~l~V-~nl~~~~t-~~~l~~~F~~~G~i~~v~i~~~~-------------g~afV~f~~~~~a~~A~~~l~g~~   85 (109)
T 1x4g_A           21 SSPKNCTVYC-GGIASGLT-DQLMRQTFSPFGQIMEIRVFPEK-------------GYSFVRFSTHESAAHAIVSVNGTT   85 (109)
T ss_dssp             SCSSCCEEEE-ECCSSCCC-HHHHHHHHHHHSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCCCcEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeCCC-------------CEEEEEECCHHHHHHHHHHcCCCE
Confidence            3556789999 89999997 99999999999999999998765             799999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|.++....
T Consensus        86 ~~g~~l~v~~a~~~~~~  102 (109)
T 1x4g_A           86 IEGHVVKCYWGKESPDM  102 (109)
T ss_dssp             ETTEECEEECCCCCCSS
T ss_pred             ECCcEEEEEecCCCCCC
Confidence            99999999999887654

>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=99.13  E-value=5.2e-10  Score=97.51  Aligned_cols=87  Identities=14%  Similarity=0.125  Sum_probs=72.8

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.+..+|++|+.  +|.
T Consensus        10 ~~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~   80 (105)
T 1x5u_A           10 SERNQDATVYV-GGLDEKVS-EPLLWELFLQAGPVVNTHMPKDRV-------TGQHQGYGFVEFLSEEDADYAIKIMDMI   80 (105)
T ss_dssp             CCCCTTTEEEE-ECCCTTCC-HHHHHHHHHTTSCEEEEECCBCSS-------SCSBCSCEEEEESSHHHHHHHHHHSSSC
T ss_pred             ccCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCcCCcEEEEEECCHHHHHHHHHHhCCC
Confidence            34566899999 89999997 999999999999999999876531       11112699999999999999996  699


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|++.|..+....
T Consensus        81 ~~~g~~l~v~~a~~~~~~   98 (105)
T 1x5u_A           81 KLYGKPIRVNKASAHNKN   98 (105)
T ss_dssp             BCSSCBCEEEETTTTSCC
T ss_pred             eECCeEEEEEECCCCCcC
Confidence            999999999998877654

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

Probab=99.12  E-value=1.7e-11  Score=106.73  Aligned_cols=78  Identities=19%  Similarity=0.160  Sum_probs=66.0

Q ss_pred             CCcccccCCCccccccccccceeeecc--eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCc----eeCCEEEE
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGS--SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGS----YRRGKRII  145 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~--V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~----~l~GR~I~  145 (634)
                      +++.|+| +.+..+++.+..+|.++|.  +..++.++++.++.++|||||+|.+.++| +||..|||.    .++||+|+
T Consensus        10 ~tlfV~n-L~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~   88 (95)
T 2lkz_A           10 DTIILRN-IAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIG   88 (95)
T ss_dssp             CEEEEES-CCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEE
T ss_pred             CEEEEeC-CCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEE
Confidence            4456666 6677888999999998884  55667788888888999999999999999 999999997    59999999


Q ss_pred             EccCcc
Q 048615          146 EGDAIQ  151 (634)
Q Consensus       146 V~~a~~  151 (634)
                      |.+|.+
T Consensus        89 V~~Aks   94 (95)
T 2lkz_A           89 VDFAKS   94 (95)
T ss_dssp             EEECCC
T ss_pred             EEEccC
Confidence            999864

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.12  E-value=5.4e-10  Score=96.47  Aligned_cols=86  Identities=14%  Similarity=0.199  Sum_probs=72.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      +..+++|+| ++||..++ +++|+++|.+||+|..|.+..+..      ...+ .++|||+|.+..+|++|+. +|..|.
T Consensus         7 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~------~~~~-~g~afV~f~~~~~a~~A~~~~~~~~~   77 (99)
T 2dgs_A            7 GSKSNKIFV-GGIPHNCG-ETELREYFKKFGVVTEVVMIYDAE------KQRP-RGFGFITFEDEQSVDQAVNMHFHDIM   77 (99)
T ss_dssp             CSSCCEEEE-ESCCSSCC-HHHHHHHHSSSSCEEEEEECCCTT------TCSC-CSEEEEEESSHHHHHHHHHHCCCBSS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEeCCC------CCCC-CceEEEEECCHHHHHHHHHhCCCEEC
Confidence            556789999 89999997 999999999999999999975431      0112 2799999999999999996 799999


Q ss_pred             CceeEEEEeCCCCCCC
Q 048615          540 GHDLQFTWLMPSSSSN  555 (634)
Q Consensus       540 g~~l~l~W~~~~~~~~  555 (634)
                      |+.|++.|..+.....
T Consensus        78 g~~l~V~~a~~~~~~~   93 (99)
T 2dgs_A           78 GKKVEVKRAEPRDSKS   93 (99)
T ss_dssp             SCBCEEEECCCCCCCC
T ss_pred             CeEEEEEECCCCcccC
Confidence            9999999998877654

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.11  E-value=3.4e-10  Score=96.12  Aligned_cols=77  Identities=17%  Similarity=0.198  Sum_probs=69.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+.  .             +++||+|.+..+|++|+  ++|..|
T Consensus         5 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~~~--~-------------g~afV~f~~~~~A~~A~~~l~g~~~   67 (90)
T 2dnq_A            5 SSGMVKLFI-GNLPREAT-EQEIRSLFEQYGKVLECDII--K-------------NYGFVHIEDKTAAEDAIRNLHHYKL   67 (90)
T ss_dssp             SSCCEEEEE-ESCCSSCC-HHHHHHHHHTSSCEEEEEEE--T-------------TEEEEEESSHHHHHHHHHHHTTCBC
T ss_pred             CCCCeEEEE-eCCCCCCC-HHHHHHHHHhCCCEEEEEEE--C-------------CEEEEEECCHHHHHHHHHHhcCCcc
Confidence            456789999 89999997 99999999999999999987  3             68999999999999998  469999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        68 ~g~~l~v~~a~~~~~~   83 (90)
T 2dnq_A           68 HGVNINVEASKNKSKA   83 (90)
T ss_dssp             SSCBCEEECSSCCCCC
T ss_pred             CCcEEEEEECCCCCCC
Confidence            9999999999887664

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.11  E-value=3.1e-11  Score=107.58  Aligned_cols=78  Identities=10%  Similarity=0.025  Sum_probs=65.6

Q ss_pred             CcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           74 DLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        74 ~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      .+.|+| +....+++.+..+|.++|.|..+.++.++.++.++|||||+|.+.++| +||..|||+.|.||+|+|.++..+
T Consensus         8 ~lfV~n-L~~~~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 EVTFAR-LNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIKG   86 (110)
T ss_dssp             EEEEES-CCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSTT
T ss_pred             EEEEEC-CCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            334444 445567788888888888888888888888788899999999999999 999999999999999999988643

>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=99.11  E-value=1.4e-10  Score=102.68  Aligned_cols=74  Identities=22%  Similarity=0.319  Sum_probs=63.8

Q ss_pred             CCEEEEeCC--CCCCCC-------HHHHHHhhccCCCEEEEEEecC--------CCeEEEEeCCHHHHHHHHHcCCC-cc
Q 048615          176 LRTLFVNNV--PLKSNR-------REALLSHFQKFGEVVDIYIPLN--------SERAFVQFSKREEAEAALKSPDA-VM  237 (634)
Q Consensus       176 ~~tLfVgnL--p~d~~t-------e~~L~~~FskfG~I~~v~v~~d--------kg~AFV~F~s~e~A~~Ai~~lng-~l  237 (634)
                      .+.|.|.|+  |.+..+       +++|++.|++||.|.+|.|+++        +|||||+|.+.++|.+|++.||| .+
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f   84 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKF   84 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEe
Confidence            578999998  443222       3689999999999999999865        47999999999999999999999 89


Q ss_pred             CCeEEEEEeecC
Q 048615          238 GNRFIKLWWANR  249 (634)
Q Consensus       238 ~gR~IkV~wak~  249 (634)
                      +||.|+|.|+..
T Consensus        85 ~GR~i~v~~~~~   96 (105)
T 3v4m_A           85 ANRVVVTKYCDP   96 (105)
T ss_dssp             TTEECEEEEECH
T ss_pred             CCCEEEEEEeCH
Confidence            999999999853

>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=99.11  E-value=2.5e-10  Score=95.97  Aligned_cols=83  Identities=20%  Similarity=0.316  Sum_probs=69.3

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ++++|+| ++||..++ +++|+++|.+||+|.+|.+..+...      .....++|||+|.+..+|++|+.  +|..|.|
T Consensus         3 ~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~~~i~~~~~~------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (88)
T 4a8x_A            3 KPTKVHI-GRLTRNVT-KDHIMEIFSTYGKIKMIDMPVERMH------PHLSKGYAYVEFENPDEAEKALKHMDGGQIDG   74 (88)
T ss_dssp             CCCEEEE-ECCCTTCC-HHHHHHHHHTTSCEEEEECCEETTE------EEEECSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhCCCEEEEEEEeCCCC------CCCCCcEEEEEEecHHHHHHHHHHcCCCeECC
Confidence            5789999 89999997 9999999999999999998654310      00012799999999999999986  7999999


Q ss_pred             ceeEEEEeCCCCC
Q 048615          541 HDLQFTWLMPSSS  553 (634)
Q Consensus       541 ~~l~l~W~~~~~~  553 (634)
                      +.|++.|..++.+
T Consensus        75 ~~l~v~~a~~~~~   87 (88)
T 4a8x_A           75 QEITATAVLAPWP   87 (88)
T ss_dssp             EECEEEEECCCCC
T ss_pred             eEEEEEECCCCCC
Confidence            9999999987654

>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=99.10  E-value=1.7e-10  Score=102.62  Aligned_cols=78  Identities=26%  Similarity=0.356  Sum_probs=69.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .+...++|+| ++||..++ +++|+++|.+||.|.+|.+....             ++|||+|.++.+|++|+.  +|..
T Consensus         6 ~~~~~~~l~V-~nLp~~~t-e~~L~~~F~~~G~i~~v~i~~~~-------------g~afV~f~~~~~A~~Ai~~l~g~~   70 (111)
T 1whx_A            6 SGRSKTVILA-KNLPAGTL-AAEIQETFSRFGSLGRVLLPEGG-------------ITAIVEFLEPLEARKAFRHLAYSK   70 (111)
T ss_dssp             TSEEEEEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCSSS-------------SCEEEEESCHHHHHHHHHHHTTCB
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEeCCC-------------CEEEEEeCCHHHHHHHHHHhCCCE
Confidence            3555789999 89999997 99999999999999999998655             799999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCC
Q 048615          538 WQGHDLQFTWLMPSS  552 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~  552 (634)
                      |.|+.|.+.|.....
T Consensus        71 ~~g~~l~V~~a~~~~   85 (111)
T 1whx_A           71 FHHVPLYLEWAPIGV   85 (111)
T ss_dssp             SSSSBCEEEEEETTT
T ss_pred             ECCeEEEEEECCCCc
Confidence            999999999987644

>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=99.10  E-value=4.2e-10  Score=97.84  Aligned_cols=87  Identities=16%  Similarity=0.154  Sum_probs=73.2

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCcc
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSW  538 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~  538 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.++..|
T Consensus        10 ~~~~~~~~l~v-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~g~~~g~afV~f~~~~~a~~A~~~~~~~   80 (103)
T 2cqg_A           10 RAVQKTSDLIV-LGLPWKTT-EQDLKEYFSTFGEVLMVQVKKDLK-------TGHSKGFGFVRFTEYETQVKVMSQRHMI   80 (103)
T ss_dssp             CCCCCCCCEEE-ESCCSSCC-HHHHHHHHGGGSCEEEEEEEECSS-------SCSEEEEEEEEESSHHHHHHHHHSCEEE
T ss_pred             CccCCCCEEEE-EcCCCcCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCCccceEEEEECCHHHHHHHHHcCCee
Confidence            45677899999 89999997 999999999999999999865431       0011268999999999999999999899


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|.+.|..+....
T Consensus        81 ~g~~l~v~~a~~~~~~   96 (103)
T 2cqg_A           81 DGRWCDCKLPNSKQSQ   96 (103)
T ss_dssp             TTEEEEEECCCTTCCC
T ss_pred             CCeEEEEEecCCCCcC
Confidence            9999999999887654

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.09  E-value=1.2e-10  Score=101.00  Aligned_cols=74  Identities=19%  Similarity=0.215  Sum_probs=67.1

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ...++|+| ++||..++ +++|+++|.+||+|.+|.+....             ++|||+|.++.+|++|+.  +|..|.
T Consensus        25 ~~~~~l~V-~nlp~~~~-~~~l~~~f~~~G~i~~~~~~~~~-------------g~afV~f~~~~~A~~Ai~~l~g~~~~   89 (101)
T 2la4_A           25 PRVTTAYI-GNIPHFAT-EADLIPLFQNFGFILDFKHYPEK-------------GCCFIKYDTHEQAAVCIVALANFPFQ   89 (101)
T ss_dssp             SSCCEEEE-ESCCTTCC-HHHHHHHHHTTSCCSEEEEETTT-------------TEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEE-cCCCcccC-HHHHHHHHHhCCCEEEEEEecCC-------------CEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            34689999 89999997 99999999999999999998554             799999999999999984  699999


Q ss_pred             CceeEEEEeCC
Q 048615          540 GHDLQFTWLMP  550 (634)
Q Consensus       540 g~~l~l~W~~~  550 (634)
                      |+.|++.|.++
T Consensus        90 g~~l~V~~a~~  100 (101)
T 2la4_A           90 GRNLRTGWGKE  100 (101)
T ss_dssp             TEECCCCBCCC
T ss_pred             CeEEEEEeccC
Confidence            99999999876

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=6.2e-10  Score=95.12  Aligned_cols=84  Identities=13%  Similarity=0.246  Sum_probs=71.2

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      .+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.++.+|++|+.  +|..|.|
T Consensus         4 ~~~~l~v-~nlp~~~t-~~~l~~~f~~~G~v~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (95)
T 2dnz_A            4 GSSGLYV-GSLHFNIT-EDMLRGIFEPFGKIDNIVLMKDSD-------TGRSKGYGFITFSDSECARRALEQLNGFELAG   74 (95)
T ss_dssp             CCCEEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEEEECCSS-------SCCCCSEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCcEEEE-eCCCCCCC-HHHHHHHHHhcCCEeEEEEeecCC-------CCceeeEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            4689999 89999997 999999999999999999976531       01112699999999999999995  7999999


Q ss_pred             ceeEEEEeCCCCCCC
Q 048615          541 HDLQFTWLMPSSSSN  555 (634)
Q Consensus       541 ~~l~l~W~~~~~~~~  555 (634)
                      +.|++.|..+.....
T Consensus        75 ~~l~V~~a~~~~~~~   89 (95)
T 2dnz_A           75 RPMRVGHVTERLDGG   89 (95)
T ss_dssp             SCCEEEESSCCCCCC
T ss_pred             cEEEEEEcccccCCC
Confidence            999999998877653

>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=99.08  E-value=3.2e-10  Score=94.36  Aligned_cols=80  Identities=20%  Similarity=0.237  Sum_probs=67.3

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~  541 (634)
                      +++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.++.+|++|+.  +|..|.|+
T Consensus         1 t~~l~V-~nlp~~~t-~~~l~~~f~~~G~i~~~~i~~~~~-------~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~   71 (83)
T 3md1_A            1 TFNLFV-GDLNVNVD-DETLRNAFKDFPSYLSGHVMWDMQ-------TGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGR   71 (83)
T ss_dssp             CEEEEE-ECCCTTCC-HHHHHHHHTTSTTEEEEEEEECTT-------TCCEEEEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CeEEEE-eCCCCCCC-HHHHHHHHHhcCCeeEEEEEEcCC-------CCCccceEEEEECCHHHHHHHHHHhcCCeeCCc
Confidence            478999 89999997 999999999999999999864421       01112789999999999999985  69999999


Q ss_pred             eeEEEEeCCCC
Q 048615          542 DLQFTWLMPSS  552 (634)
Q Consensus       542 ~l~l~W~~~~~  552 (634)
                      .|++.|..+..
T Consensus        72 ~l~v~~a~~~~   82 (83)
T 3md1_A           72 PLRINWAAKLE   82 (83)
T ss_dssp             ECEEEECCCCC
T ss_pred             EEEEEecCcCC
Confidence            99999988753

>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=99.08  E-value=9.1e-10  Score=98.60  Aligned_cols=84  Identities=20%  Similarity=0.217  Sum_probs=72.0

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ++.+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....++|||+|.+..+|++|+.  +|..|
T Consensus         4 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~F~~~~~A~~Ai~~l~g~~~   73 (116)
T 2fy1_A            4 ADHPGKLFI-GGLNRETN-EKMLKAVFGKHGPISEVLLIKDRT--------SKSRGFAFITFENPADAKNAAKDMNGKSL   73 (116)
T ss_dssp             TCSCCEEEE-ECCTTTCC-HHHHHHHHHTSSCCSEEEEECSTT--------TTCCCEEEEECSSHHHHHHHHHHCSSCBC
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEECCC--------CCcccEEEEEECCHHHHHHHHHHhCCCEE
Confidence            567899999 89999997 999999999999999999876531        1122799999999999999995  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        74 ~g~~l~V~~a~~~~~~   89 (116)
T 2fy1_A           74 HGKAIKVEQAKKPSFQ   89 (116)
T ss_dssp             SSSBCEEEECCCSSCS
T ss_pred             CCEEEEEEECCCCCCC
Confidence            9999999999877654

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=1e-09  Score=97.10  Aligned_cols=87  Identities=14%  Similarity=0.099  Sum_probs=71.8

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....+++||+|.++.+|++|+.  +|.
T Consensus        10 ~~~~~~~~l~V-~nlp~~~~-~~~l~~~f~~~G~i~~~~i~~~~~--------g~~~g~afV~f~~~~~a~~A~~~l~g~   79 (114)
T 2do0_A           10 QAGRLGSTVFV-ANLDYKVG-WKKLKEVFSMAGVVVRADILEDKD--------GKSRGIGTVTFEQSIEAVQAISMFNGQ   79 (114)
T ss_dssp             CCCCCCSCEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEEEEECTT--------CSEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             ccCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEECCC--------CCeeeEEEEEECCHHHHHHHHHHhCCC
Confidence            34555789999 89999997 999999999999999999875431        1112699999999999999985  799


Q ss_pred             ccCCceeEEEEeCCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~~  555 (634)
                      .|.|+.|++.|.....+..
T Consensus        80 ~~~g~~l~v~~a~~~~~~~   98 (114)
T 2do0_A           80 LLFDRPMHVKMDERALPKG   98 (114)
T ss_dssp             EETTEECEEEECSCCCCCS
T ss_pred             EeCCCEEEEEEcccCCCCC
Confidence            9999999999987665443

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.07  E-value=3.9e-10  Score=97.74  Aligned_cols=86  Identities=14%  Similarity=0.181  Sum_probs=72.2

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..
T Consensus         8 ~~~~~~~l~V-~nLp~~~t-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~   78 (102)
T 2cqb_A            8 MATTKRVLYV-GGLAEEVD-DKVLHAAFIPFGDITDIQIPLDYE-------TEKHRGFAFVEFELAEDAAAAIDNMNESE   78 (102)
T ss_dssp             SCCCCSCEEE-ESCCSSCC-HHHHHHHHTTTSCCCCEECCCCSS-------SCCCSSEEEECCSSHHHHHHHHHHHTTEE
T ss_pred             cCCCCCEEEE-eCCCCCCC-HHHHHHHhhccCCEEEEEEEecCC-------CCCcceEEEEEECCHHHHHHHHHHhCCCE
Confidence            4556789999 89999997 999999999999999999865431       01122799999999999999984  7999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        79 ~~g~~l~V~~a~~~~~~   95 (102)
T 2cqb_A           79 LFGRTIRVNLAKPMRIK   95 (102)
T ss_dssp             ETTEEEEEEECCCCCCC
T ss_pred             ECCcEEEEEeCCCCCCC
Confidence            99999999999887654

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.07  E-value=5.8e-10  Score=95.07  Aligned_cols=81  Identities=17%  Similarity=0.240  Sum_probs=68.4

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.++.+|++|+.  +|..
T Consensus        12 ~~~~~~~l~V-~nlp~~~t-~~~l~~~f~~~G~v~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~   82 (94)
T 2e5h_A           12 LAPSKSTVYV-SNLPFSLT-NNDLYRIFSKYGKVVKVTIMKDKD-------TRKSKGVAFILFLDKDSAQNCTRAINNKQ   82 (94)
T ss_dssp             CCCCTTSEEE-ESCCTTSC-HHHHHHHTTTTSCEEEEEECCCSS-------SCCCTTCEEEEESCHHHHHHHHHHTTTEE
T ss_pred             CCCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCeEEEEEEeCCC-------CCCcccEEEEEECCHHHHHHHHHHcCCCe
Confidence            4567889999 89999997 999999999999999999976541       01112689999999999999995  6999


Q ss_pred             cCCceeEEEEeC
Q 048615          538 WQGHDLQFTWLM  549 (634)
Q Consensus       538 ~~g~~l~l~W~~  549 (634)
                      |.|+.|++.|.+
T Consensus        83 ~~g~~l~v~~ak   94 (94)
T 2e5h_A           83 LFGRVIKASIAI   94 (94)
T ss_dssp             ETTEEEEEEECC
T ss_pred             eCCcEEEEEecC
Confidence            999999999964

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.07  E-value=7.3e-10  Score=96.02  Aligned_cols=86  Identities=20%  Similarity=0.248  Sum_probs=72.0

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      ....+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..
T Consensus         8 ~~~~~~~l~v-~nLp~~~t-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~   78 (102)
T 1x5s_A            8 MASDEGKLFV-GGLSFDTN-EQSLEQVFSKYGQISEVVVVKDRE-------TQRSRGFGFVTFENIDDAKDAMMAMNGKS   78 (102)
T ss_dssp             CCCCCSEEEE-ESCCTTCC-HHHHHHHHHHHSCCCEEEECCCSS-------SCSCCSEEEEECSSHHHHHHHHHHHTTCC
T ss_pred             CCCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCeEEEEEEeCCC-------CCCcccEEEEEECCHHHHHHHHHHhCCCE
Confidence            3456789999 89999997 999999999999999999976531       11112699999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        79 ~~g~~l~v~~a~~~~~~   95 (102)
T 1x5s_A           79 VDGRQIRVDQAGKSSDN   95 (102)
T ss_dssp             TTSCCCEEEEEECCCCC
T ss_pred             ECCeEEEEEECCCCCCC
Confidence            99999999999887654

>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=99.07  E-value=3.3e-10  Score=95.12  Aligned_cols=80  Identities=16%  Similarity=0.260  Sum_probs=66.0

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|.|
T Consensus         5 ~~~~l~v-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   75 (87)
T 3bs9_A            5 SHFHVFV-GDLSPEIT-TAAIAAAFAPFGRISDARVVKDMA-------TGKSKGYGFVSFFNKWDAENAIQQMGGQWLGG   75 (87)
T ss_dssp             -CEEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CceEEEE-eCCCCCCC-HHHHHHHHHhcCCEeEEEEEecCC-------CCccceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            3578999 89999997 999999999999999999865421       01112699999999999999995  6999999


Q ss_pred             ceeEEEEeCCC
Q 048615          541 HDLQFTWLMPS  551 (634)
Q Consensus       541 ~~l~l~W~~~~  551 (634)
                      +.|++.|..+.
T Consensus        76 ~~l~v~~a~~k   86 (87)
T 3bs9_A           76 RQIRTNWATRK   86 (87)
T ss_dssp             EECEEEEEC--
T ss_pred             eEEEEEecCCC
Confidence            99999998875

>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=99.06  E-value=8.5e-10  Score=96.96  Aligned_cols=86  Identities=17%  Similarity=0.201  Sum_probs=71.3

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c----
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S----  534 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~----  534 (634)
                      ....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +    
T Consensus        12 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~g~~~g~afV~f~~~~~A~~A~~~~~~~~~   82 (111)
T 1x4h_A           12 VTEGKTVFI-RNLSFDSE-EEALGEVLQQFGDLKYVRVVLHPD-------TEHSKGCAFAQFMTQEAAQKCLAAASLEAE   82 (111)
T ss_dssp             CCCCCCEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCBCSS-------SCCBCSEEEEEESSHHHHHHHHHHHCTTTT
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCCCccEEEEEECCHHHHHHHHHHhccccc
Confidence            345789999 89999997 999999999999999999875431       01112799999999999999995  4    


Q ss_pred             --CCccCCceeEEEEeCCCCCCC
Q 048615          535 --GKSWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       535 --g~~~~g~~l~l~W~~~~~~~~  555 (634)
                        |..|.|+.|++.|..+.....
T Consensus        83 ~~~~~~~g~~l~v~~a~~~~~~~  105 (111)
T 1x4h_A           83 GGGLKLDGRQLKVDLAVTRDEAA  105 (111)
T ss_dssp             TCCEESSSCEEEEECCCCCCCCC
T ss_pred             cCCcEEcCEEEEEEECCCCccCC
Confidence              889999999999998876543

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.06  E-value=6.5e-10  Score=96.66  Aligned_cols=85  Identities=24%  Similarity=0.382  Sum_probs=71.3

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|
T Consensus        12 ~~~~~~l~V-~nlp~~~t-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~~   82 (103)
T 2cq0_A           12 ADDNATIRV-TNLSEDTR-ETDLQELFRPFGSISRIYLAKDKT-------TGQSKGFAFISFHRREDAARAIAGVSGFGY   82 (103)
T ss_dssp             CSSSEEEEE-ESCCTTCC-HHHHHTTSTTTCCEEEEEEEECSS-------SCSEEEEEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCCeEEEEEeecCC-------CCceeeEEEEEECCHHHHHHHHHHcCCCee
Confidence            455789999 89999997 999999999999999999875431       00112689999999999999996  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        83 ~g~~l~v~~a~~~~~~   98 (103)
T 2cq0_A           83 DHLILNVEWAKPSTNS   98 (103)
T ss_dssp             TTEECEEEESSCCCCS
T ss_pred             CCcEEEEEECCCCCCC
Confidence            9999999998887654

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.06  E-value=4.7e-10  Score=95.30  Aligned_cols=83  Identities=19%  Similarity=0.291  Sum_probs=70.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+....         ....+++||+|.++.+|++|+.  +|..|
T Consensus         5 ~~~~~~l~V-~nlp~~~t-~~~l~~~f~~~G~v~~~~i~~~~---------g~~~g~afV~f~~~~~a~~a~~~l~g~~~   73 (92)
T 2dgv_A            5 SSGACQIFV-RNLPFDFT-WKMLKDKFNECGHVLYADIKMEN---------GKSKGCGVVKFESPEVAERACRMMNGMKL   73 (92)
T ss_dssp             SSSCCEEEE-CSCCTTCC-HHHHHHHHHTTSCEEEEEEEESS---------SCEEEEEEEEESSHHHHHHHHHHHTTCCB
T ss_pred             CCCCcEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEccC---------CCcceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            456789999 89999997 99999999999999999987421         0112689999999999999985  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        74 ~g~~l~v~~a~~~~~~   89 (92)
T 2dgv_A           74 SGREIDVRIDRNASGP   89 (92)
T ss_dssp             TTBCCCCEECSCCSSC
T ss_pred             CCcEEEEEEcCCCCCC
Confidence            9999999998877654

>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=99.06  E-value=2.6e-10  Score=121.09  Aligned_cols=74  Identities=23%  Similarity=0.306  Sum_probs=65.1

Q ss_pred             CCCCEEEEeC--CCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-cc---CCe--EEEEE
Q 048615          174 KALRTLFVNN--VPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VM---GNR--FIKLW  245 (634)
Q Consensus       174 ~~~~tLfVgn--Lp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l---~gR--~IkV~  245 (634)
                      .+..+|||+|  |+++ +++++|+++|++||.|.+|.|+..++||||+|.+.++|++|++.||| .+   .|+  +|.|.
T Consensus        16 ~ps~~l~VgN~gl~~~-~te~~L~~~F~~~G~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~   94 (345)
T 3tht_A           16 YATQSLVVANGGLGNG-VSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN   94 (345)
T ss_dssp             SCCSEEEEETCSGGGT-CCHHHHHHHHHTTSCEEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             CCCCEEEEEcCCCCCC-CCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEE
Confidence            4567999999  5785 99999999999999999999999999999999999999999999999 33   356  67778


Q ss_pred             eec
Q 048615          246 WAN  248 (634)
Q Consensus       246 wak  248 (634)
                      |+.
T Consensus        95 ~~~   97 (345)
T 3tht_A           95 FVE   97 (345)
T ss_dssp             ECS
T ss_pred             Eee
Confidence            764

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.06  E-value=6.2e-10  Score=94.50  Aligned_cols=77  Identities=12%  Similarity=0.155  Sum_probs=68.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+..               +++||+|.+..+|++|+.  +|..|
T Consensus         6 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~~~~~~---------------~~afV~f~~~~~a~~A~~~l~g~~~   68 (90)
T 2dnp_A            6 SGNTWKIFV-GNVSAACT-SQELRSLFERRGRVIECDVVK---------------DYAFVHMEKEADAKAAIAQLNGKEV   68 (90)
T ss_dssp             SCCSCCEEE-ESCCTTCC-HHHHHHHHHHHSCEEEEEECS---------------SCEEEEESCHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHcCCCEEEEEEEC---------------CEEEEEECCHHHHHHHHHHhCCCEE
Confidence            455789999 89999997 999999999999999999873               489999999999999985  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        69 ~g~~l~v~~a~~~~~~   84 (90)
T 2dnp_A           69 KGKRINVELSTKGQKK   84 (90)
T ss_dssp             TTEECEEEESCCCCCC
T ss_pred             CCcEEEEEECCCCCCC
Confidence            9999999998877543

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.05  E-value=7.2e-10  Score=94.50  Aligned_cols=77  Identities=13%  Similarity=0.214  Sum_probs=69.2

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +..+++|+| ++||..++ +++|+++|.+||.|..|.+..               .+|||+|.+..+|++|+.  +|..|
T Consensus         7 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~v~~v~~~~---------------~~afV~f~~~~~a~~A~~~l~g~~~   69 (92)
T 2dgt_A            7 GKASTKLHV-GNISPTCT-NQELRAKFEEYGPVIECDIVK---------------DYAFVHMERAEDAVEAIRGLDNTEF   69 (92)
T ss_dssp             CCSSEEEEE-ESCCSSCC-HHHHHHHHHTTSCCCEEEECS---------------SEEEEEESCHHHHHHHHHHHTTEEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEC---------------CEEEEEECCHHHHHHHHHHhCCCee
Confidence            556789999 89999997 999999999999999999873               489999999999999994  79999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus        70 ~g~~l~V~~a~~~~~~   85 (92)
T 2dgt_A           70 QGKRMHVQLSTSRLRT   85 (92)
T ss_dssp             TTEEEEEEESSCCCSC
T ss_pred             CCcEEEEEEccCCCCC
Confidence            9999999999877654

>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=99.05  E-value=1.2e-09  Score=94.12  Aligned_cols=84  Identities=18%  Similarity=0.207  Sum_probs=70.9

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|.
T Consensus         6 ~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   76 (99)
T 1whw_A            6 SGSGRLFV-RNLSYTSS-EEDLEKLFSAYGPLSELHYPIDSL-------TKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ   76 (99)
T ss_dssp             CSCEEEEE-ECCCTTCC-HHHHHHHHHTTSCEEEEECCCCTT-------TCCCCSEEEEEESSHHHHHHHHHHTTTEESS
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEeEEEEEecCC-------CCCcCeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            45789999 89999997 999999999999999999875431       11122799999999999999984  699999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+....
T Consensus        77 g~~l~V~~a~~~~~~   91 (99)
T 1whw_A           77 GRMLHVLPSTIKKEA   91 (99)
T ss_dssp             SCEEEEEECCCCSTT
T ss_pred             CcEEEEEEcCCCccc
Confidence            999999999887654

>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=99.05  E-value=5.7e-10  Score=93.24  Aligned_cols=80  Identities=14%  Similarity=0.193  Sum_probs=67.3

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+  ++|..|
T Consensus         4 ~~~~~~l~V-~nl~~~~~-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~   74 (85)
T 3mdf_A            4 ATTKRVLYV-GGLAEEVD-DKVLHAAFIPFGDITDIQIPLDYE-------TEKHRGFAFVEFELAEDAAAAIDNMNESEL   74 (85)
T ss_dssp             CCCSSEEEE-ECCCTTCC-HHHHHHHHGGGSCEEEEECCEETT-------TTEECSEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHhccCCEEEEEEEECCC-------CCccccEEEEEECCHHHHHHHHHHhCCCEE
Confidence            567899999 89999997 999999999999999999864321       0111278999999999999998  479999


Q ss_pred             CCceeEEEEeC
Q 048615          539 QGHDLQFTWLM  549 (634)
Q Consensus       539 ~g~~l~l~W~~  549 (634)
                      .|+.|++.|.+
T Consensus        75 ~g~~l~v~~ak   85 (85)
T 3mdf_A           75 FGRTIRVNLAK   85 (85)
T ss_dssp             TTEECEEEECC
T ss_pred             CCcEEEEEEcC
Confidence            99999999964

>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=99.05  E-value=2.7e-11  Score=103.21  Aligned_cols=73  Identities=5%  Similarity=0.001  Sum_probs=59.8

Q ss_pred             CCccccccccccceeeec--ceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIG--SSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig--~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|.++|  .|..+..+.++.++.++|||||+|.+.++| +||..|||..|+||+|+|.++.+..
T Consensus         9 L~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~~~~   84 (90)
T 3p5t_L            9 LTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSNKLE   84 (90)
T ss_dssp             CCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC----
T ss_pred             CCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECCCCc
Confidence            334567788888888888  777777788887888899999999999999 9999999999999999999988654

>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=99.04  E-value=8.5e-10  Score=96.12  Aligned_cols=83  Identities=16%  Similarity=0.147  Sum_probs=70.2

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....++|||+|.+..+|++|+.  +|..|.
T Consensus        13 ~~~~~l~v-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   82 (105)
T 2dnh_A           13 GRDRKLFV-GMLNKQQS-EEDVLRLFQPFGVIDECTVLRGPD--------GSSKGCAFVKFSSHTEAQAAIHALHGSQTM   82 (105)
T ss_dssp             CCCCEEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEEEEECSS--------SCEEEEEEEEESSHHHHHHHHHHHSSCCCC
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEECCC--------CCcCcEEEEEeCCHHHHHHHHHHHcCCccC
Confidence            45789999 89999997 999999999999999999876531        1112799999999999999985  799998


Q ss_pred             C---ceeEEEEeCCCCCC
Q 048615          540 G---HDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g---~~l~l~W~~~~~~~  554 (634)
                      |   +.|++.|..+....
T Consensus        83 gg~~~~l~V~~a~~~~~~  100 (105)
T 2dnh_A           83 PGASSSLVVKFADTDKES  100 (105)
T ss_dssp             TTCSSCCEEEESCSSCCC
T ss_pred             CCCCccEEEEECccCccc
Confidence            7   99999999877654

>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=99.04  E-value=1.4e-09  Score=95.87  Aligned_cols=79  Identities=16%  Similarity=0.175  Sum_probs=70.1

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      .+..++|+| ++||..++ +++|+++|.+||+|.+|.+..+              +++||+|.+..+|++|+.  +|..|
T Consensus        12 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~~~i~~~--------------g~afV~f~~~~~a~~Ai~~l~g~~~   75 (108)
T 1x4c_A           12 RRSENRVVV-SGLPPSGS-WQDLKDHMREAGDVCYADVYRD--------------GTGVVEFVRKEDMTYAVRKLDNTKF   75 (108)
T ss_dssp             CSCCCEEEE-ESCCSSCC-HHHHHHHHGGGSCEEEEEEETT--------------TEEEEEESSHHHHHHHHHHSSSEEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEeEEEEecC--------------CEEEEEECCHHHHHHHHHHHCcCCc
Confidence            455789999 89999997 9999999999999999998754              589999999999999996  58899


Q ss_pred             CC-----ceeEEEEeCCCCCCC
Q 048615          539 QG-----HDLQFTWLMPSSSSN  555 (634)
Q Consensus       539 ~g-----~~l~l~W~~~~~~~~  555 (634)
                      .|     +.|++.|..+...+.
T Consensus        76 ~g~~~~~~~i~V~~a~~~~~~~   97 (108)
T 1x4c_A           76 RSHEGETAYIRVKVDGPRSPSY   97 (108)
T ss_dssp             ECTTSCEEEEEEEESSCCSCCC
T ss_pred             cCCcCcceEEEEEeCCCCCCCC
Confidence            99     999999999876653

>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=99.04  E-value=1.3e-09  Score=94.94  Aligned_cols=78  Identities=19%  Similarity=0.343  Sum_probs=69.6

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|..|.+..               +++||+|.+..+|++|+.  +|..|
T Consensus         8 ~~~~~~l~V-~nl~~~~t-~~~l~~~F~~~G~i~~v~~~~---------------~~afV~f~~~~~a~~A~~~l~g~~~   70 (103)
T 2dgu_A            8 MAKVKVLFV-RNLANTVT-EEILEKAFSQFGKLERVKKLK---------------DYAFIHFDERDGAVKAMEEMNGKDL   70 (103)
T ss_dssp             CCCCCCEEE-ECCCTTCC-HHHHHHHHHHHSCEEEEEECS---------------SCEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEC---------------CEEEEEeCCHHHHHHHHHHHCCCcc
Confidence            455789999 89999997 999999999999999999872               589999999999999996  69999


Q ss_pred             CCceeEEEEeCCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~~  555 (634)
                      .|+.|++.|..+.....
T Consensus        71 ~g~~l~v~~a~~~~~~~   87 (103)
T 2dgu_A           71 EGENIEIVFAKPPDQKR   87 (103)
T ss_dssp             TTEEEEEEECCCCCCCC
T ss_pred             CCCEEEEEEcCCCcccc
Confidence            99999999998876543

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.04  E-value=1.1e-09  Score=95.20  Aligned_cols=86  Identities=17%  Similarity=0.210  Sum_probs=71.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ...+++|+| ++||..++ +++|+++|.+||+|..|.+..+..       .....++|||+|.+..+|++|+.  +|..|
T Consensus        10 ~~~~~~l~V-~nLp~~~t-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~~   80 (103)
T 2dnm_A           10 VDGMITLKV-DNLTYRTS-PDSLRRVFEKYGRVGDVYIPREPH-------TKAPRGFAFVRFHDRRDAQDAEAAMDGAEL   80 (103)
T ss_dssp             CSCCCEEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEECCBCSS-------SCSBCSCEEEEESSSSHHHHHHHHHSSCCB
T ss_pred             CCCCeEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEeCCC-------CCCCCeEEEEEECCHHHHHHHHHHcCCCEE
Confidence            345789999 89999997 999999999999999999875431       01112799999999999999996  69999


Q ss_pred             CCceeEEEEeCCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~~  555 (634)
                      .|+.|++.|..+.....
T Consensus        81 ~g~~l~V~~a~~~~~~~   97 (103)
T 2dnm_A           81 DGRELRVQVARYGRRDL   97 (103)
T ss_dssp             TTBCCEEEECSSCCSCC
T ss_pred             CCcEEEEEECCcCCCCC
Confidence            99999999998776543

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

Probab=99.04  E-value=6.8e-10  Score=96.19  Aligned_cols=76  Identities=24%  Similarity=0.241  Sum_probs=68.0

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCce
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHD  542 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~  542 (634)
                      |+|+| ++||..++ +++|+++|.+||+|.+|.+..+.            .++|||+|.+..+|++|+.  +|..|.|+.
T Consensus         1 ~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~------------~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   66 (101)
T 2hvz_A            1 MKVYV-GNLGTGAG-KGELERAFSYYGPLRTVWIARNP------------PGFAFVEFEDPRDAEDAVRGLDGKVICGSR   66 (101)
T ss_dssp             CEEEE-ECCCSSCS-HHHHHHHHHHHCCCSEEEEESSS------------SSEEEEECSSHHHHHHHHHHHHHSCSSSCC
T ss_pred             CEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeeCC------------CCEEEEEECCHHHHHHHHHHHCCCeECCcE
Confidence            68999 89999997 99999999999999999987651            2799999999999999996  699999999


Q ss_pred             eEEEEeCCCCCC
Q 048615          543 LQFTWLMPSSSS  554 (634)
Q Consensus       543 l~l~W~~~~~~~  554 (634)
                      |++.|..+....
T Consensus        67 l~V~~a~~~~~~   78 (101)
T 2hvz_A           67 VRVELSTGMPRR   78 (101)
T ss_dssp             CEEEESSSCCCS
T ss_pred             EEEEEccCCCCc
Confidence            999999887644

>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=99.04  E-value=1.8e-09  Score=94.86  Aligned_cols=83  Identities=19%  Similarity=0.338  Sum_probs=70.9

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|..|.+....         .+ .++|||+|.+..+|++|+.  +|..
T Consensus        18 ~~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~v~~~~i~~~~---------~~-~g~afV~f~~~~~A~~A~~~l~g~~   85 (109)
T 1x4a_A           18 AGNNDCRIYV-GNLPPDIR-TKDIEDVFYKYGAIRDIDLKNRR---------GG-PPFAFVEFEDPRDAEDAVYGRDGYD   85 (109)
T ss_dssp             CCCCSSEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEECCSS---------SS-SCCEEEEESCHHHHHHHHHHHTTCE
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEECC---------CC-CcEEEEEECCHHHHHHHHHHcCCCE
Confidence            4556789999 89999997 99999999999999999996542         12 2699999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        86 ~~g~~l~V~~a~~~~~~  102 (109)
T 1x4a_A           86 YDGYRLRVEFPRSGRGT  102 (109)
T ss_dssp             ETTEECEEECCCCCCCC
T ss_pred             ECCeEEEEEEcccCCCC
Confidence            99999999998876543

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.04  E-value=7e-10  Score=97.66  Aligned_cols=83  Identities=18%  Similarity=0.253  Sum_probs=70.5

Q ss_pred             cccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CC
Q 048615          458 YKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GK  536 (634)
Q Consensus       458 ~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~  536 (634)
                      +.-|...++|+| ++||..++ +++|++||.+||+|.+|.+..+..       ..+ .+++||+|.+..+|++|+.. |.
T Consensus         5 ~~~~~~~~~lfV-~~Lp~~~t-e~~L~~~F~~~G~v~~v~i~~d~~-------g~~-rG~aFV~F~~~e~a~~Ai~~~~~   74 (103)
T 1s79_A            5 LKNDVKNRSVYI-KGFPTDAT-LDDIKEWLEDKGQVLNIQMRRTLH-------KAF-KGSIFVVFDSIESAKKFVETPGQ   74 (103)
T ss_dssp             CSSCSGGGCEEE-ECCCTTCC-HHHHHHHHHTSSCEEEEEEECCCT-------TSC-CCEEEEEESSHHHHHHHHTSSCC
T ss_pred             ccccCCCCEEEE-ECCCCCCC-HHHHHHHHhhcCCEEEEEEEECCC-------CCC-ccEEEEEECCHHHHHHHHHcCCC
Confidence            455777899999 89999997 999999999999999999986541       112 37999999999999999864 88


Q ss_pred             ccCCceeEEEEeCC
Q 048615          537 SWQGHDLQFTWLMP  550 (634)
Q Consensus       537 ~~~g~~l~l~W~~~  550 (634)
                      .|.|+.|.+.|...
T Consensus        75 ~~~gr~l~V~~~~~   88 (103)
T 1s79_A           75 KYKETDLLILFKDD   88 (103)
T ss_dssp             CCTTTTCEEEEHHH
T ss_pred             EECCEEEEEEEchH
Confidence            99999999999653

>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=99.03  E-value=3.3e-10  Score=102.55  Aligned_cols=74  Identities=18%  Similarity=0.225  Sum_probs=64.0

Q ss_pred             CCEEEEeCCC--CCC--CCHHHHHHhhccCCCEEEEEEecCC----------CeEEEEeCCHHHHHHHHHcCCC-ccCCe
Q 048615          176 LRTLFVNNVP--LKS--NRREALLSHFQKFGEVVDIYIPLNS----------ERAFVQFSKREEAEAALKSPDA-VMGNR  240 (634)
Q Consensus       176 ~~tLfVgnLp--~d~--~te~~L~~~FskfG~I~~v~v~~dk----------g~AFV~F~s~e~A~~Ai~~lng-~l~gR  240 (634)
                      .++|+|.|+-  .+.  --+++|++.|++||.|.+|.|+.++          ||+||+|.+.++|.+|++.||| .++||
T Consensus        20 s~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR   99 (118)
T 3ue2_A           20 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGR   99 (118)
T ss_dssp             CCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            5799999983  210  1368999999999999999998752          6999999999999999999999 89999


Q ss_pred             EEEEEeecC
Q 048615          241 FIKLWWANR  249 (634)
Q Consensus       241 ~IkV~wak~  249 (634)
                      .|+|.|+..
T Consensus       100 ~i~v~~~~~  108 (118)
T 3ue2_A          100 KVVAEVYDQ  108 (118)
T ss_dssp             ECEEEEECH
T ss_pred             EEEEEEcCh
Confidence            999999853

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.03  E-value=1.9e-10  Score=98.52  Aligned_cols=72  Identities=10%  Similarity=0.219  Sum_probs=61.9

Q ss_pred             Cccccccccccceeeecceeee-eccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNR-SNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~-~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ....+++.+..+|.++|.|..+ .++.++.++.++|||||+|.+.++| +|+..|||..|.|++|+|.++.++.
T Consensus        14 p~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   87 (96)
T 1x5t_A           14 DPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKD   87 (96)
T ss_dssp             CTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCCC
T ss_pred             CCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEecccC
Confidence            3345677788888888888777 7777777778899999999999999 9999999999999999999998765

>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=99.03  E-value=1.6e-10  Score=99.36  Aligned_cols=73  Identities=11%  Similarity=0.121  Sum_probs=64.8

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +|+..|||..|+|++|+|.++.++.
T Consensus        10 Lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~   83 (96)
T 2x1f_A           10 IPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSNSD   83 (96)
T ss_dssp             CCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSS
T ss_pred             CCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCCCC
Confidence            344567788899999999998888888887778899999999999999 9999999999999999999998765

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.03  E-value=6.6e-10  Score=95.59  Aligned_cols=86  Identities=20%  Similarity=0.223  Sum_probs=69.9

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      .+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..   ..+...+ .++|||+|.+..+|++|+.  +|..|.|
T Consensus         4 ~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~---~~gt~~~-~g~afV~f~~~~~a~~A~~~l~g~~~~g   77 (98)
T 2cpf_A            4 GSSGLFI-KNLNFSTT-EETLKGVFSKVGAIKSCTISKKKN---KAGVLLS-MGFGFVEYKKPEQAQKALKQLQGHTVDG   77 (98)
T ss_dssp             CCCCEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEEEEEC---TTCCEEE-EEEEEEEESSHHHHHHHHHHSTTCEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC---CCCCcCc-ccEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            4689999 89999997 999999999999999999875431   0000011 2699999999999999997  6999999


Q ss_pred             ceeEEEEeCCCCCC
Q 048615          541 HDLQFTWLMPSSSS  554 (634)
Q Consensus       541 ~~l~l~W~~~~~~~  554 (634)
                      +.|++.|..+....
T Consensus        78 ~~l~V~~a~~~~~~   91 (98)
T 2cpf_A           78 HKLEVRISERATKP   91 (98)
T ss_dssp             EECEEECSSCSSCC
T ss_pred             eEEEEEEccCCCCC
Confidence            99999998877654

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

Probab=99.02  E-value=1.3e-10  Score=99.83  Aligned_cols=68  Identities=15%  Similarity=0.084  Sum_probs=59.3

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .|+| ++...+++.++.+|.++|+|..++.+.      ++|||||+|.+.++| +|+..|||..|.||+|+|+.|.
T Consensus        11 ~VgN-L~~~~te~~L~~lF~q~G~V~~~~l~~------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A           11 LLKN-LTAQIDGPTLRTLCMQHGPLVSFHPYL------NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             EEEC-CCTTCCCHHHHHHHHHHSCEEEEEEET------TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             EEeC-CCccCCHHHHHHHHHhhCCEEEEEEcC------CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            3444 566778899999999999999887643      499999999999999 9999999999999999999874

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.02  E-value=6.3e-10  Score=98.37  Aligned_cols=81  Identities=22%  Similarity=0.336  Sum_probs=70.1

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        .++ ++|||+|.++.+|++|+.  +|..
T Consensus        25 ~~~~~~~l~V-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~~~~--------~~k-g~afV~f~~~~~A~~Ai~~l~g~~   93 (109)
T 2err_A           25 NKSQPKRLHV-SNIPFRFR-DPDLRQMFGQFGKILDVEIIFNER--------GSK-GFGFVTFENSADADRAREKLHGTV   93 (109)
T ss_dssp             CTTCCCEEEE-ESCCTTCC-HHHHHHHGGGTCCCSCEEECCBTT--------BCT-TEEEEECCCSHHHHHHHHHHTTCE
T ss_pred             CCCCCCEEEE-ECCCCcCC-HHHHHHHHHhcCCEEEEEEEECCC--------CCc-eEEEEEECCHHHHHHHHHHcCCCE
Confidence            4566889999 89999997 999999999999999999875531        122 799999999999999995  6999


Q ss_pred             cCCceeEEEEeCCC
Q 048615          538 WQGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~~g~~l~l~W~~~~  551 (634)
                      |.|+.|++.|..+.
T Consensus        94 ~~g~~l~V~~a~~~  107 (109)
T 2err_A           94 VEGRKIEVNNATAR  107 (109)
T ss_dssp             ETTEECEEEECCCS
T ss_pred             ECCEEEEEEECCCC
Confidence            99999999998765

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.02  E-value=1.9e-09  Score=93.16  Aligned_cols=78  Identities=18%  Similarity=0.252  Sum_probs=68.9

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcc--cceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSY--GDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S  534 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~f--Gei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~  534 (634)
                      ......++|+| ++||..++ +++|+++|.+|  |+|.+|.+..               ++|||+|.+..+|++|+.  +
T Consensus        10 ~~~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~g~g~v~~~~~~~---------------g~afV~f~~~~~A~~A~~~l~   72 (99)
T 2cpd_A           10 DTMSSVKILYV-RNLMLSTS-EEMIEKEFNNIKPGAVERVKKIR---------------DYAFVHFSNREDAVEAMKALN   72 (99)
T ss_dssp             SCSSCCCEEEE-ESCCTTCC-HHHHHHHHHTTSTTCEEEEEECS---------------SEEEEEESSHHHHHHHHHHHS
T ss_pred             cccCCcCEEEE-eCCCCCCC-HHHHHHHHHhcCCcceEEEEEeC---------------CeEEEEeCCHHHHHHHHHHhC
Confidence            34455789999 89999997 99999999999  9999998762               589999999999999995  6


Q ss_pred             CCccCCceeEEEEeCCCCC
Q 048615          535 GKSWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       535 g~~~~g~~l~l~W~~~~~~  553 (634)
                      |..|.|+.|++.|..+...
T Consensus        73 g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpd_A           73 GKVLDGSPIEVTLAKPVDK   91 (99)
T ss_dssp             SEEETTEEEEEECCCCCCC
T ss_pred             CCEeCCcEEEEEECCCCCC
Confidence            9999999999999987664

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.02  E-value=6e-10  Score=97.20  Aligned_cols=88  Identities=11%  Similarity=0.124  Sum_probs=73.1

Q ss_pred             cccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCC
Q 048615          458 YKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGK  536 (634)
Q Consensus       458 ~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~  536 (634)
                      ..-|...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+. +|.
T Consensus        10 ~~~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~v~i~~~~~-------~g~~~g~afV~f~~~~~a~~a~~~~~~   80 (105)
T 2dh8_A           10 NSGADEIGKLFV-GGLDWSTT-QETLRSYFSQYGEVVDCVIMKDKT-------TNQSRGFGFVKFKDPNCVGTVLASRPH   80 (105)
T ss_dssp             CCCSSSSSEECC-BSCCTTCC-HHHHHHHHHTTSCEEEEEEEECSS-------SCCEEEEEEEEESSTTHHHHHHHHCSE
T ss_pred             cCCCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeeCCC-------CCCcceEEEEEECCHHHHHHHHHhCCC
Confidence            345777899999 89999997 999999999999999999876531       00112689999999999999987 688


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|++.|..+....
T Consensus        81 ~~~g~~l~V~~a~~~~~~   98 (105)
T 2dh8_A           81 TLDGRNIDPKPCTPRGMQ   98 (105)
T ss_dssp             EETTEEEBCCCSCCSSCC
T ss_pred             eECCEEEEEEEccCCCCC
Confidence            999999999998877654

>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=99.01  E-value=2.2e-10  Score=101.73  Aligned_cols=72  Identities=13%  Similarity=0.114  Sum_probs=62.8

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM  154 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~  154 (634)
                      ...+++.+..+|.++|.|..+.++.++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.++..
T Consensus        35 ~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~  107 (115)
T 2cpz_A           35 QEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKND  107 (115)
T ss_dssp             SSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCCSCC
T ss_pred             CCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCCc
Confidence            3456777888888888888887788777778899999999999999 99999999999999999999987653

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=8.8e-10  Score=95.30  Aligned_cols=85  Identities=14%  Similarity=0.175  Sum_probs=71.2

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....++|||+|.+..+|++|+.  +|.
T Consensus        12 ~~~~~~~~l~v-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~f~~~~~a~~A~~~l~g~   81 (100)
T 2do4_A           12 STSLEKHKLFI-SGLPFSCT-KEELEEICKAHGTVKDLRLVTNRA--------GKPKGLAYVEYENESQASQAVMKMDGM   81 (100)
T ss_dssp             SSCCCCSCEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEEEEECTT--------SCEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             ccCCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCCeEEEEEEECCC--------CCEEeEEEEEECCHHHHHHHHHHhCCC
Confidence            34556789999 89999997 999999999999999999875431        1112689999999999999984  699


Q ss_pred             ccCCceeEEEEeCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~  553 (634)
                      .|.|+.|++.|..+...
T Consensus        82 ~~~g~~l~v~~a~~~~~   98 (100)
T 2do4_A           82 TIKENIIKVAISNSGPS   98 (100)
T ss_dssp             ESSSCEEEEEECCCCSC
T ss_pred             EECCEEEEEEECCCCCC
Confidence            99999999999887765

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.01  E-value=4.7e-11  Score=104.08  Aligned_cols=69  Identities=13%  Similarity=0.148  Sum_probs=62.7

Q ss_pred             cccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCC-EEEEEccCccc
Q 048615           84 AVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRG-KRIIEGDAIQK  152 (634)
Q Consensus        84 ~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~G-R~I~V~~a~~k  152 (634)
                      ..+++.+..+|+++|.|..+.++.++.++.++|||||+|.+.++| +||..|||..|.| |+|+|.++.++
T Consensus        23 ~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a~~~   93 (100)
T 3ns6_A           23 PVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTMKDV   93 (100)
T ss_dssp             HHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEESHHH
T ss_pred             HHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEECchh
Confidence            567788899999999999888888888788899999999999999 9999999999999 99999998754

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

Probab=99.01  E-value=8.3e-10  Score=97.73  Aligned_cols=78  Identities=22%  Similarity=0.343  Sum_probs=68.8

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+.  .             ++|||+|.+..+|++|+.  +|.
T Consensus        26 ~~~~~~~~l~V-~nLp~~~t-~~~L~~~F~~~G~i~~v~i~--k-------------g~afV~f~~~~~A~~Ai~~l~g~   88 (108)
T 2jvo_A           26 EGELSNTRLFV-RPFPLDVQ-ESELNEIFGPFGPMKEVKIL--N-------------GFAFVEFEEAESAAKAIEEVHGK   88 (108)
T ss_dssp             --CCSCSEEEE-CSSCTTCC-HHHHHHHHTTTSCCCEEEEE--T-------------TEEEEECSSHHHHHHHHHHHTTC
T ss_pred             CCCCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCEEEEEEE--C-------------CEEEEEECCHHHHHHHHHHcCCC
Confidence            34667899999 89999997 99999999999999999997  3             799999999999999995  799


Q ss_pred             ccCCceeEEEEeCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~  553 (634)
                      .|.|+.|++.|..+...
T Consensus        89 ~~~g~~l~V~~a~~~~~  105 (108)
T 2jvo_A           89 SFANQPLEVVYSKLPAK  105 (108)
T ss_dssp             EETTEECEEESCSCCC-
T ss_pred             EECCeEEEEEEecCCCC
Confidence            99999999999887653

>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=99.01  E-value=7.8e-10  Score=94.47  Aligned_cols=81  Identities=16%  Similarity=0.137  Sum_probs=69.0

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....+++||+|.+..+|++|+.  +|..
T Consensus        12 ~~~~~~~l~v-~nlp~~~~-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~f~~~~~a~~A~~~l~g~~   81 (95)
T 2ywk_A           12 QEEADRTVFV-GNLEARVR-EEILYELFLQAGPLTKVTICKDRE--------GKPKSFGFVCFKHPESVSYAIALLNGIR   81 (95)
T ss_dssp             CTTGGGEEEE-ECCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT--------SCEEEEEEEEESSTHHHHHHHHHHTTCE
T ss_pred             CCCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCEEEEEEEECCC--------CCCceEEEEEECCHHHHHHHHHHhCCCE
Confidence            4667899999 89999997 999999999999999999876531        1112699999999999999995  7999


Q ss_pred             cCCceeEEEEeCC
Q 048615          538 WQGHDLQFTWLMP  550 (634)
Q Consensus       538 ~~g~~l~l~W~~~  550 (634)
                      |.|+.|++.|.++
T Consensus        82 ~~g~~l~V~~a~~   94 (95)
T 2ywk_A           82 LYGRPINVSGPSS   94 (95)
T ss_dssp             ETTEECEEECCCC
T ss_pred             ECCCEEEEEEcCC
Confidence            9999999999653

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.01  E-value=1e-09  Score=93.57  Aligned_cols=81  Identities=19%  Similarity=0.185  Sum_probs=67.6

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.+..+|++|+.  +|..|
T Consensus        12 ~~~~~~l~v-~nlp~~~t-~~~l~~~f~~~G~v~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~A~~~l~g~~~   82 (95)
T 2cqc_A           12 PDPNCCLGV-FGLSLYTT-ERDLREVFSKYGPIADVSIVYDQQ-------SRRSRGFAFVYFENVDDAKEAKERANGMEL   82 (95)
T ss_dssp             CCGGGCEEE-ESCCSSCC-HHHHHHHHHTTSCEEEEEEEECSS-------SSSEEEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCeeEEEEEEcCC-------CCCcccEEEEEECCHHHHHHHHHHhCCCEE
Confidence            455789999 89999997 999999999999999999865431       00112689999999999999995  69999


Q ss_pred             CCceeEEEEeCC
Q 048615          539 QGHDLQFTWLMP  550 (634)
Q Consensus       539 ~g~~l~l~W~~~  550 (634)
                      .|+.|++.|.++
T Consensus        83 ~g~~l~v~~a~~   94 (95)
T 2cqc_A           83 DGRRIRVSGPSS   94 (95)
T ss_dssp             TTEEEEEECCSC
T ss_pred             CCEEEEEEecCC
Confidence            999999999764

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

Probab=99.01  E-value=1.3e-09  Score=93.39  Aligned_cols=79  Identities=19%  Similarity=0.337  Sum_probs=67.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEE-ecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVE-LEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~-~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      ..++++|+| ++||..++ +++|+++|.+||+|.+|+ +..+..           +..+||+|.+..+|++|+.  +|..
T Consensus        12 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~~~~i~~~~~-----------~~~afV~f~~~~~a~~Ai~~l~g~~   78 (96)
T 2e44_A           12 RQRIRKLQI-RNIPPHLQ-WEVLDSLLVQYGVVESCEQVNTDSE-----------TAVVNVTYSSKDQARQALDKLNGFQ   78 (96)
T ss_dssp             CCSCCCEEE-EEECSSSC-HHHHHHHHHHHSCEEEEEEECCSSS-----------SEEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             CCCCCEEEE-EcCCCCCC-HHHHHHHHHhcCCeEEEEEeecCCC-----------CCEEEEEECCHHHHHHHHHHhCCCE
Confidence            456899999 89999997 999999999999999994 554331           1349999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCC
Q 048615          538 WQGHDLQFTWLMPSS  552 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~  552 (634)
                      |.|+.|++.|..+..
T Consensus        79 ~~g~~l~V~~a~~~~   93 (96)
T 2e44_A           79 LENFTLKVAYIPDEM   93 (96)
T ss_dssp             CSSCBCEEEECCCCC
T ss_pred             ECCcEEEEEEcCccc
Confidence            999999999988763

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.00  E-value=4.5e-10  Score=113.62  Aligned_cols=81  Identities=16%  Similarity=0.248  Sum_probs=67.9

Q ss_pred             cCCCcceEEEcCCCCCCCC--------CHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHH
Q 048615          460 LDNRPTAFRIMPPLPVGFA--------DVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERA  531 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~--------~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A  531 (634)
                      .|...++|+| |+||..+.        .+++|++||.+||+|++|.+...+             ++|||+|.++.+||+|
T Consensus       130 ~~~~~rtLfV-gnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~k-------------G~AFV~F~~~~~Ae~A  195 (240)
T 3u1l_A          130 FRKKNKTLYV-GGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESK-------------NCGFVKFKYQANAEFA  195 (240)
T ss_dssp             -CCCCCEEEE-ECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGG-------------TEEEEEESSHHHHHHH
T ss_pred             cccCCceeec-CCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCC-------------CEEEEEeCCHHHHHHH
Confidence            4778899999 89998872        289999999999999999998766             8999999999999999


Q ss_pred             H--HcCCcc------------CCceeEEEEeCCCCCC
Q 048615          532 F--LSGKSW------------QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       532 ~--~~g~~~------------~g~~l~l~W~~~~~~~  554 (634)
                      +  ++|..|            .|..|.+.|....+..
T Consensus       196 ~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~pnp  232 (240)
T 3u1l_A          196 KEAMSNQTLLLPSDKEWDDRREGTGLLVKWANEDPDP  232 (240)
T ss_dssp             HHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC-----
T ss_pred             HHHhCCCEEeccccccccccCCCCEEEEEEccCCCCH
Confidence            7  469988            8899999999876543

>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=99.00  E-value=4.9e-10  Score=99.35  Aligned_cols=80  Identities=13%  Similarity=0.124  Sum_probs=63.8

Q ss_pred             CCcccccCCCccccccccc---cceeeecceeeeeccccccC---CCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEE
Q 048615           73 NDLPVRNAGTAAVSQNTSM---SVWGRIGSSKNRSNVKEKID---ATLNSLDYLENETKEDR-EALPSLQGSYRRGKRII  145 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~---svfg~Ig~V~~~~~~k~k~~---~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~  145 (634)
                      +.+.|+| +....+++.+.   .+|.++|.|..+.+++++..   ..++|||||+|.+.++| +||..|||..|.||+|+
T Consensus        16 ~~l~V~n-Lp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~   94 (111)
T 2cpi_A           16 NLVFVVG-LSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK   94 (111)
T ss_dssp             SCEEEEE-ECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEEEEC-CCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEEE
Confidence            4455555 55556677777   88888888777777766543   34569999999999999 99999999999999999


Q ss_pred             EccCcccC
Q 048615          146 EGDAIQKN  153 (634)
Q Consensus       146 V~~a~~k~  153 (634)
                      |.++.++.
T Consensus        95 V~~a~~k~  102 (111)
T 2cpi_A           95 ASLGTTKY  102 (111)
T ss_dssp             EESCCCCS
T ss_pred             EEeccccc
Confidence            99998776

>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=99.00  E-value=1.2e-09  Score=99.17  Aligned_cols=76  Identities=12%  Similarity=0.190  Sum_probs=67.9

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c--CCccC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S--GKSWQ  539 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~--g~~~~  539 (634)
                      .++|+| ++||..++ +++|+++|.+||+|.+|.+..++             ++|||+|.+..+|++|+.  +  +..|.
T Consensus        31 s~~LfV-gNLp~~vt-e~dL~~lF~~fG~V~~v~i~~~k-------------G~AFVeF~~~e~A~~Ai~~l~~~~~~l~   95 (119)
T 2ad9_A           31 SRVIHI-RKLPIDVT-EGEVISLGLPFGKVTNLLMLKGK-------------NQAFIEMNTEEAANTMVNYYTSVTPVLR   95 (119)
T ss_dssp             CSEEEE-ESCCTTCC-HHHHHHHHTTTSCCCEEEEEGGG-------------TEEEEECSCHHHHHHHHHHHHHHCCCBT
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEeCCC-------------CEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            468999 89999997 99999999999999999998765             799999999999999986  3  57899


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+....
T Consensus        96 Gr~l~V~~a~~k~~~  110 (119)
T 2ad9_A           96 GQPIYIQFSNHKELK  110 (119)
T ss_dssp             TBCCEEEECSSSSCC
T ss_pred             CeEEEEEEccCCCCC
Confidence            999999998876654

>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=98.99  E-value=1.2e-09  Score=94.24  Aligned_cols=78  Identities=15%  Similarity=0.133  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCCCHHHHH----HHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLK----EHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~----~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .++|+| ++||..++ +++|+    ++|.+||+|.+|.+..+..        .  .++|||+|.+..+|++|+.  +|..
T Consensus         9 ~~~l~V-~nL~~~~~-~~~l~~~l~~~F~~~G~v~~v~i~~~~~--------~--rg~afV~f~~~~~A~~Ai~~l~g~~   76 (96)
T 2dgx_A            9 GADVQV-SNIDYRLS-RKELQQLLQEAFARHGKVKSVELSPHTD--------Y--QLKAVVQMENLQDAIGAVNSLHRYK   76 (96)
T ss_dssp             CEEEEE-ESCCTTSC-HHHHHHHHHHHHHHHSCEEEEEECSCCS--------T--TCCEEEEESSHHHHHHHHHHHTTEE
T ss_pred             CCEEEE-ECCCCCCC-HHHHHHHHHHhccccCcEEEEEEEeCCC--------C--CeEEEEEECCHHHHHHHHHHhCCCE
Confidence            478999 89999997 89999    9999999999999986541        1  2689999999999999985  6999


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      |.|+.|++.|..+...
T Consensus        77 ~~gr~l~V~~a~~~~~   92 (96)
T 2dgx_A           77 IGSKKILVSLATGASG   92 (96)
T ss_dssp             ETTEEEEEEECCCSSC
T ss_pred             ECCeEEEEEEcCCCCC
Confidence            9999999999877654

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=98.99  E-value=1.1e-09  Score=95.60  Aligned_cols=84  Identities=13%  Similarity=0.249  Sum_probs=69.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|
T Consensus        20 ~~~~~~l~V-~nlp~~~t-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~   90 (106)
T 1p27_B           20 SVEGWILFV-TGVHEEAT-EEDIHDKFAEYGEIKNIHLNLDRR-------TGYLKGYTLVEYETYKEAQAAMEGLNGQDL   90 (106)
T ss_dssp             BTTBEEEEE-ECCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TSSEEEEEEEEESCHHHHHHHHHHHTTCBS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHhccCCeEEEEEEecCC-------CCceeeEEEEEECCHHHHHHHHHHhcCCEE
Confidence            345689999 89999997 999999999999999999865431       01112689999999999999995  69999


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|..+..+
T Consensus        91 ~g~~l~V~~a~~~~~  105 (106)
T 1p27_B           91 MGQPISVDWCFVRGP  105 (106)
T ss_dssp             SSSBCEEEESEESSC
T ss_pred             CCcEEEEEeecCCCC
Confidence            999999999876543

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.99  E-value=2.8e-09  Score=91.79  Aligned_cols=76  Identities=13%  Similarity=0.236  Sum_probs=65.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ...++|+| ++|  .++ +++|+++|.+||+|.+|.+....             +++||+|.++.+|++|+.  +|..|.
T Consensus        13 ~~~~~l~V-~n~--~~t-~~~l~~~F~~~G~i~~v~i~~~~-------------g~afV~f~~~~~a~~Ai~~l~g~~~~   75 (97)
T 1x5p_A           13 RKGNTLYV-YGE--DMT-PTLLRGAFSPFGNIIDLSMDPPR-------------NCAFVTYEKMESADQAVAELNGTQVE   75 (97)
T ss_dssp             CCCSEEEE-ECS--SCC-HHHHHHHHTTTSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHTTTEEET
T ss_pred             CCCCEEEE-cCC--CCC-HHHHHHHHhhCCCEEEEEecCCC-------------CEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            34679999 555  565 89999999999999999996544             799999999999999985  699999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+....
T Consensus        76 g~~l~v~~a~~~~~~   90 (97)
T 1x5p_A           76 SVQLKVNIARKQPML   90 (97)
T ss_dssp             TEEEEEECCSSCCCC
T ss_pred             CeEEEEEECCCCCCC
Confidence            999999999877654

>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=98.98  E-value=6.2e-10  Score=93.82  Aligned_cols=83  Identities=11%  Similarity=0.221  Sum_probs=68.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      |...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+. +|..|.
T Consensus         3 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~a~~~~g~~~~   73 (89)
T 3ucg_A            3 EADARSIYV-GNVDYGAT-AEELEAHFHGCGSVNRVTILCDKF-------SGHPKGFAYIEFSDKESVRTSLALDESLFR   73 (89)
T ss_dssp             HHHHTEEEE-ESCCTTCC-HHHHHHHHGGGCCEEEEEEEESCS-------SSSCCEEEEEEESSTHHHHHHGGGTTCEET
T ss_pred             CCcCCEEEE-eCCCCCCC-HHHHHHHHHhCCCEEEEEEEecCC-------CCCcceEEEEEECCHHHHHHHHhcCCCEEC
Confidence            345689999 89999997 999999999999999999875431       11112799999999999999983 499999


Q ss_pred             CceeEEEEeCCCC
Q 048615          540 GHDLQFTWLMPSS  552 (634)
Q Consensus       540 g~~l~l~W~~~~~  552 (634)
                      |+.|++.|.++..
T Consensus        74 g~~l~V~~a~~~~   86 (89)
T 3ucg_A           74 GRQIKVIPKRTNR   86 (89)
T ss_dssp             TEECEEEETTTTS
T ss_pred             CcEEEEEEccCCC
Confidence            9999999987654

>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=98.98  E-value=2.3e-09  Score=93.51  Aligned_cols=86  Identities=16%  Similarity=0.185  Sum_probs=71.0

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~  537 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .++|||+|.++.+|++|+  ++|..
T Consensus         9 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~------~g~~-~g~afV~f~~~~~A~~A~~~l~g~~   79 (106)
T 2dgp_A            9 KDHDAIKLFI-GQIPRNLD-EKDLKPLFEEFGKIYELTVLKDRF------TGMH-KGCAFLTYCERESALKAQSALHEQK   79 (106)
T ss_dssp             CCTTCEEEEE-ESCCTTCC-HHHHHHHHHHHSCCCEEECCCCSS------SCSC-CSEEEEEESSHHHHHHHHHHHTTTC
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeeEEEEEecCC------CCCc-ceEEEEEECCHHHHHHHHHHhcCCc
Confidence            3566889999 89999997 999999999999999999876531      0112 279999999999999998  46887


Q ss_pred             c---CCceeEEEEeCCCCCC
Q 048615          538 W---QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~---~g~~l~l~W~~~~~~~  554 (634)
                      +   .|+.|++.|..+....
T Consensus        80 ~~~~~g~~l~v~~a~~~~~~   99 (106)
T 2dgp_A           80 TLPGMNRPIQVKPADSESRG   99 (106)
T ss_dssp             CCTTCSSCCEEEECCCCSCC
T ss_pred             ccCCCCceEEEEECCccccc
Confidence            7   7899999998876653

>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=98.98  E-value=3.6e-10  Score=98.20  Aligned_cols=85  Identities=16%  Similarity=0.213  Sum_probs=70.6

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .|...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..
T Consensus         4 ~~~~~~~l~V-~nlp~~~~-~~~l~~~f~~~G~i~~~~i~~~~~-------~g~~~g~afV~f~~~~~a~~A~~~l~g~~   74 (104)
T 1p1t_A            4 VDRSLRSVFV-GNIPYEAT-EEQLKDIFSEVGPVVSFRLVYDRE-------TGKPKGYGFCEYQDQETALSAMRNLNGRE   74 (104)
T ss_dssp             SHHHHSCEEE-ESCCTTSC-HHHHHHHHHTTSCCSEEEEEEETT-------TTEEEEEEEEECSCHHHHHHHHHHSSSBS
T ss_pred             cCCCccEEEE-eCCCCcCC-HHHHHHHHHhcCCeeEEEEEeCCC-------CCccceEEEEEECCHHHHHHHHHHhCCCe
Confidence            4556799999 89999997 999999999999999999875421       00112699999999999999994  6999


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      |.|+.|++.|..+...
T Consensus        75 ~~g~~l~v~~a~~~~~   90 (104)
T 1p1t_A           75 FSGRALRVDNAASEKN   90 (104)
T ss_dssp             CSSSCBEEEETTCTTH
T ss_pred             eCCcEEEEEeCCCccc
Confidence            9999999999877654

>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=98.98  E-value=1.7e-09  Score=93.70  Aligned_cols=75  Identities=19%  Similarity=0.218  Sum_probs=66.5

Q ss_pred             cCCCcceEEEcCCCCC-CCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          460 LDNRPTAFRIMPPLPV-GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~-~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .....++|+| ++||. .++ +++|+++|.+||+|.+|.+.  .             ++|||+|.+..+|++|+.  +|.
T Consensus        18 ~~~~~~~l~V-~nLp~~~~t-~~~L~~~F~~~G~v~~v~i~--~-------------g~afV~f~~~~~A~~Ai~~l~g~   80 (97)
T 2xnq_A           18 GSHMKSRLFI-GNLPLKNVS-KEDLFRIFSPYGHIMQINIK--N-------------AFGFIQFDNPQSVRDAIEXESQE   80 (97)
T ss_dssp             -CCTTCEEEE-ESCCSSCCC-HHHHHHHHGGGSCEEEEEEC--S-------------SEEEEEESSHHHHHHHHHHHTTS
T ss_pred             CCCCCCEEEE-eCCCcccCC-HHHHHHHHHhcCCEEEEEEe--C-------------CEEEEEECCHHHHHHHHHHcCCC
Confidence            4556789999 89998 897 99999999999999999995  2             699999999999999985  599


Q ss_pred             ccCCceeEEEEeCCC
Q 048615          537 SWQGHDLQFTWLMPS  551 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~  551 (634)
                      .|.|+.|++.|.++.
T Consensus        81 ~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           81 MNFGKKLILEVSSSN   95 (97)
T ss_dssp             EETTEECEEEECCCC
T ss_pred             EECCEEEEEEecCCC
Confidence            999999999997654

>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=98.98  E-value=8.6e-11  Score=103.78  Aligned_cols=66  Identities=20%  Similarity=0.324  Sum_probs=58.2

Q ss_pred             EeCCCCCCCCHHHHHHhh------------ccCCCEEEEEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEE
Q 048615          181 VNNVPLKSNRREALLSHF------------QKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFI  242 (634)
Q Consensus       181 VgnLp~d~~te~~L~~~F------------skfG~I~~v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~I  242 (634)
                      +.+||+. +++++|+++|            ++||.|.+|.|+++     +|||||+|.+.++|.+|+..||| .++||.|
T Consensus        20 ~~~l~~~-~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i   98 (104)
T 1jmt_A           20 ADGLRSA-VSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI   98 (104)
T ss_dssp             -CHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             cCCcccc-cCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEE
Confidence            5677774 7887777777            99999999999876     47999999999999999999999 8999999


Q ss_pred             EEEee
Q 048615          243 KLWWA  247 (634)
Q Consensus       243 kV~wa  247 (634)
                      +|.|+
T Consensus        99 ~v~~s  103 (104)
T 1jmt_A           99 HAELS  103 (104)
T ss_dssp             CEEEC
T ss_pred             EEEEc
Confidence            99996

>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=98.98  E-value=1.3e-09  Score=95.92  Aligned_cols=84  Identities=15%  Similarity=0.244  Sum_probs=70.0

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|
T Consensus        23 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~   93 (110)
T 1oo0_B           23 SVEGWILFV-TSIHEEAQ-EDEIQEKFCDYGEIKNIHLNLDRR-------TGFSKGYALVEYETHKQALAAKEALNGAEI   93 (110)
T ss_dssp             BTTBEEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEECCBCTT-------TSSBCSEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEecCC-------CCCcceEEEEEECCHHHHHHHHHHcCCCEE
Confidence            445689999 89999997 999999999999999999865431       11112799999999999999995  79999


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|..+..+
T Consensus        94 ~g~~l~V~~a~~~~~  108 (110)
T 1oo0_B           94 MGQTIQVDWCFVKGP  108 (110)
T ss_dssp             TTEECEEEESEESSC
T ss_pred             CCcEEEEEEcccCCC
Confidence            999999999876543

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

Probab=98.98  E-value=1.1e-09  Score=94.23  Aligned_cols=77  Identities=18%  Similarity=0.213  Sum_probs=67.2

Q ss_pred             CCCcceEEEcCCCCC-CCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          461 DNRPTAFRIMPPLPV-GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~-~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      ....++|+| ++||. .++ +++|+++|.+||+|.+|.+.  .             +++||+|.+..+|++|+.  +|..
T Consensus         7 ~~~~~~l~V-~nlp~~~~t-~~~l~~~F~~~G~v~~v~i~--~-------------g~afV~f~~~~~A~~A~~~l~g~~   69 (96)
T 2kvi_A            7 IPPKSRLFI-GNLPLKNVS-KEDLFRIFSPYGHIMQINIK--N-------------AFGFIQFDNPQSVRDAIECESQEM   69 (96)
T ss_dssp             --CCEEEEE-ESSTTSCCC-HHHHHHHHTTTCCCCEEEEE--T-------------TEEEEEESCHHHHHHHHHHHTCSS
T ss_pred             CCCCCEEEE-eCCCcccCC-HHHHHHHHHhcCCEEEEEEe--C-------------CEEEEEECCHHHHHHHHHHcCCCe
Confidence            445789999 89998 887 99999999999999999995  2             699999999999999996  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        70 ~~g~~l~V~~a~~~~~~   86 (96)
T 2kvi_A           70 NFGKKLILEVSSSNARP   86 (96)
T ss_dssp             CBTTTBCEEEEECCCC-
T ss_pred             eCCcEEEEEEcCcCCCC
Confidence            99999999999876543

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.97  E-value=2.1e-09  Score=94.96  Aligned_cols=85  Identities=18%  Similarity=0.250  Sum_probs=70.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhccccee--------EEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLA--------SVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF  532 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~--------sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~  532 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.        .|.+..+..       .....++|||+|.+..+|++|+
T Consensus        12 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~-------~g~~~g~afV~f~~~~~A~~Ai   82 (113)
T 2cpe_A           12 DSDNSAIYV-QGLNDSVT-LDDLADFFKQCGVVKMNKRTGQPMIHIYLDKE-------TGKPKGDATVSYEDPPTAKAAV   82 (113)
T ss_dssp             CCCCCEEEE-ECCCTTCC-HHHHHHHHTTTSCBCBCSSSCCBSEECCBCTT-------TCSBCSEEEEEBSSHHHHHHHH
T ss_pred             CCCCCEEEE-cCCCCCCC-HHHHHHHHHhcCCEeEccccCccCEEEEEeCC-------CCCeeeEEEEEECCHHHHHHHH
Confidence            556889999 89999997 999999999999998        477765421       0111269999999999999999


Q ss_pred             H--cCCccCCceeEEEEeCCCCCC
Q 048615          533 L--SGKSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       533 ~--~g~~~~g~~l~l~W~~~~~~~  554 (634)
                      .  +|..|.|+.|++.|..+....
T Consensus        83 ~~l~g~~~~g~~l~V~~a~~~~~~  106 (113)
T 2cpe_A           83 EWFDGKDFQGSKLKVSLARKKPPM  106 (113)
T ss_dssp             HHHTTCEETTEECEEECSSCCCCS
T ss_pred             HHcCCCccCCCEEEEEECCCCCCC
Confidence            5  799999999999999887664

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.97  E-value=1.4e-09  Score=93.67  Aligned_cols=84  Identities=17%  Similarity=0.255  Sum_probs=69.9

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhccccee-EEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLA-SVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~-sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|. +|.+..+..       .....++|||+|.++.+|++|+.  +|..|
T Consensus         7 ~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~~v~i~~~~~-------~g~~~g~afV~f~~~~~a~~A~~~l~g~~~   77 (99)
T 2div_A            7 GMAASLWM-GDLEPYMD-ENFISRAFATMGETVMSVKIIRNRL-------TGIPAGYCFVEFADLATAEKCLHKINGKPL   77 (99)
T ss_dssp             SSSSEEEE-CSCCTTCC-HHHHHHHHHHTTCCCCEEEEEECSS-------SCCEEEEEEEECSCHHHHHHHHHTTTTSEE
T ss_pred             CCccEEEE-eCCCCCCC-HHHHHHHHHHhCCcceEEEEeecCC-------CCCcCCEEEEEeCCHHHHHHHHHHHcCCcc
Confidence            35789999 89999997 999999999999999 998865431       00112689999999999999996  69999


Q ss_pred             CCce----eEEEEeCCCCCC
Q 048615          539 QGHD----LQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~----l~l~W~~~~~~~  554 (634)
                      .|+.    |++.|.++...+
T Consensus        78 ~g~~~~~~l~v~~a~~~~~~   97 (99)
T 2div_A           78 PGATPAKRFKLNYATYSGPS   97 (99)
T ss_dssp             SSCSSCEECCEEETTCCSSS
T ss_pred             CCCCcceeEEEeecCCCCCC
Confidence            9988    999998877654

>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=98.97  E-value=1.5e-09  Score=95.98  Aligned_cols=85  Identities=15%  Similarity=0.267  Sum_probs=70.8

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.++.+|++|+.  +|.
T Consensus        21 ~~~~~~~~l~V-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~~~~-------~g~~~g~afV~F~~~~~A~~Ai~~l~g~   91 (108)
T 2jrs_A           21 KGSAGPMRLYV-GSLHFNIT-EDMLRGIFEPFGRIESIQLMMDSE-------TGRSKGYGFITFSDSECAKKALEQLNGF   91 (108)
T ss_dssp             CSCSSCEEEEE-ECCCSSCC-HHHHHHHHTTTSCEEEEEEEEETT-------TTEEEEEEEEEESCHHHHHHHHHHHTTC
T ss_pred             cCCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEEcCC-------CCccceEEEEEECCHHHHHHHHHHcCCC
Confidence            44667899999 89999997 999999999999999999875421       00112699999999999999985  799


Q ss_pred             ccCCceeEEEEeCCCC
Q 048615          537 SWQGHDLQFTWLMPSS  552 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~  552 (634)
                      .|.|+.|++.|.++.+
T Consensus        92 ~i~g~~l~V~~a~~k~  107 (108)
T 2jrs_A           92 ELAGRPMKVGHVTERT  107 (108)
T ss_dssp             CSSSSCCEEECSCSSC
T ss_pred             EECCEEEEEEEcccCC
Confidence            9999999999987754

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.96  E-value=7.2e-09  Score=92.03  Aligned_cols=85  Identities=19%  Similarity=0.198  Sum_probs=70.5

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc--CC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS--GK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~--g~  536 (634)
                      .-|...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+..  + 
T Consensus        12 ~~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~Ai~~~~~-   81 (116)
T 2cqd_A           12 QKDTTFTKIFV-GGLPYHTT-DASLRKYFEGFGDIEEAVVITDRQ-------TGKSRGYGFVTMADRAAAERACKDPNP-   81 (116)
T ss_dssp             CCSCSSSEEEE-ECCCSSCC-HHHHHHHHHTTSCEEEEEESCCSS-------SCCCCSEEEEEESSHHHHHHHHTCSSC-
T ss_pred             cCCCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCCeeEEEEEEcCC-------CCccceEEEEEECCHHHHHHHHHhCCC-
Confidence            35677899999 89999997 999999999999999999976541       111126999999999999999864  6 


Q ss_pred             ccCCceeEEEEeCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~  553 (634)
                      .|.|+.|++.|..+...
T Consensus        82 ~~~g~~l~V~~a~~~~~   98 (116)
T 2cqd_A           82 IIDGRKANVNLAYLGAK   98 (116)
T ss_dssp             EETTEECEEEESTTTCC
T ss_pred             cCCCEEEEEEEcccCCC
Confidence            89999999999876543

>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=98.95  E-value=1.7e-09  Score=90.93  Aligned_cols=80  Identities=11%  Similarity=0.116  Sum_probs=66.4

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.+..+|++|+.. +..|
T Consensus         7 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~g~~~g~afV~f~~~~~a~~A~~~~~~~~   77 (87)
T 3s7r_A            7 NEEDAGKMFV-GGLSWDTS-KKDLKDYFTKFGEVVDCTIKMDPN-------TGRSRGFGFILFKDAASVEKVLDQKEHRL   77 (87)
T ss_dssp             CCSCTTEEEE-ECCCTTCC-HHHHHHHHTTTSCEEEEEEEECTT-------TCCEEEEEEEEESSTHHHHHHHHSSCEEE
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCCEEEEEEeecCC-------CCccccEEEEEECCHHHHHHHHHhCCCEE
Confidence            3566889999 89999997 999999999999999999864421       011126899999999999999964 7789


Q ss_pred             CCceeEEEEe
Q 048615          539 QGHDLQFTWL  548 (634)
Q Consensus       539 ~g~~l~l~W~  548 (634)
                      .|+.|++.|.
T Consensus        78 ~g~~i~v~~A   87 (87)
T 3s7r_A           78 DGRVIDPKKA   87 (87)
T ss_dssp             TTEEEEEEEC
T ss_pred             CCEEEEEEeC
Confidence            9999999983

>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=98.95  E-value=9.1e-10  Score=93.07  Aligned_cols=79  Identities=18%  Similarity=0.193  Sum_probs=65.9

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCccCCc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGH  541 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~~g~  541 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|.+|.+....            .++|||+|.+..+|++|......+.|.
T Consensus         3 ~~~~~l~V-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~~~------------~g~afV~f~~~~~a~~~~~~~~~~~g~   68 (88)
T 1wf0_A            3 SGSSGVFV-GRCTGDMT-EDELREFFSQYGDVMDVFIPKPF------------RAFAFVTFADDQIAQSLCGEDLIIKGI   68 (88)
T ss_dssp             SCCCEEEE-ESCCSSSC-HHHHHHHSTTTSCCCEEECCSSC------------CSCCEEECSCHHHHHHTTTCEEEETTE
T ss_pred             CCCcEEEE-eCCCCCCC-HHHHHHHHHHcCCeeEEEEecCC------------CCEEEEEECCHHHHHHHhcCCceeCCE
Confidence            35789999 89999997 99999999999999999986431            279999999999999764444455889


Q ss_pred             eeEEEEeCCCCCC
Q 048615          542 DLQFTWLMPSSSS  554 (634)
Q Consensus       542 ~l~l~W~~~~~~~  554 (634)
                      .|++.|..+....
T Consensus        69 ~l~v~~a~~~~~~   81 (88)
T 1wf0_A           69 SVHISNAEPKHNS   81 (88)
T ss_dssp             EEEEECCCCCCCC
T ss_pred             EEEEEecCCCCCC
Confidence            9999999887654

>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=98.95  E-value=1.1e-09  Score=93.40  Aligned_cols=78  Identities=18%  Similarity=0.159  Sum_probs=67.1

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccc-eeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cC-C
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGD-LASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SG-K  536 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGe-i~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g-~  536 (634)
                      +...++|+| ++||..++ +++|+++|.+||+ |..+.+.. .             +++||+|.++.+|++|+.  +| .
T Consensus         5 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~vv~~~~~~~-~-------------g~afV~f~~~~~A~~A~~~l~g~~   68 (93)
T 2cqh_A            5 SSGMNKLYI-GNLSPAVT-ADDLRQLFGDRKLPLAGQVLLK-S-------------GYAFVDYPDQNWAIRAIETLSGKV   68 (93)
T ss_dssp             CCCCCCEEE-ECCCTTCC-HHHHHHHHHHTTCCCSSCEEEE-T-------------TEEEECCSCHHHHHHHHHHHTTTC
T ss_pred             CCCCcEEEE-eCCCCCCC-HHHHHHHHHHcCCceEEEEEcC-C-------------CEEEEEECCHHHHHHHHHHccCCe
Confidence            345689999 89999997 9999999999999 77776632 2             799999999999999985  68 8


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|++.|..+....
T Consensus        69 ~~~g~~l~v~~a~~~~~~   86 (93)
T 2cqh_A           69 ELHGKIMEVDYSVSKKLR   86 (93)
T ss_dssp             EETTEECEEEECCCCCCC
T ss_pred             eECCEEEEEEEccCcccc
Confidence            999999999999877553

>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=98.95  E-value=2.2e-09  Score=94.63  Aligned_cols=74  Identities=20%  Similarity=0.284  Sum_probs=66.0

Q ss_pred             CcceEEEcCCCCCC-CCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          463 RPTAFRIMPPLPVG-FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       463 r~t~l~V~~~l~~~-~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ..++|+| ++||.. ++ +++|+++|.+||+|.+|.+.  .             ++|||+|.+..+|++|+.  +|..|.
T Consensus        26 ~~~~l~V-~nl~~~~~t-~~~l~~~F~~~G~v~~v~i~--~-------------g~afV~f~~~~~A~~A~~~l~g~~~~   88 (110)
T 1wf1_A           26 INSRVFI-GNLNTALVK-KSDVETIFSKYGRVAGCSVH--K-------------GYAFVQYSNERHARAAVLGENGRVLA   88 (110)
T ss_dssp             CSSEEEE-CSCCCSSCC-HHHHHHHHGGGSCCSEEEEE--T-------------TEEEEECSSSHHHHHHHHHHTTCEET
T ss_pred             CCcEEEE-eCCCcccCC-HHHHHHHHHhCCCeEEEEEe--C-------------CEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            3589999 899999 86 99999999999999999992  2             799999999999999984  699999


Q ss_pred             CceeEEEEeCCCCC
Q 048615          540 GHDLQFTWLMPSSS  553 (634)
Q Consensus       540 g~~l~l~W~~~~~~  553 (634)
                      |+.|++.|..+...
T Consensus        89 g~~l~V~~a~~~~~  102 (110)
T 1wf1_A           89 GQTLDINMAGEPKP  102 (110)
T ss_dssp             TEECCEEESCCCCS
T ss_pred             CeEEEEEECCCCCC
Confidence            99999999876544

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=98.95  E-value=2.5e-10  Score=98.69  Aligned_cols=75  Identities=15%  Similarity=0.107  Sum_probs=63.3

Q ss_pred             cccccCCCccccccccccceeeecceee--------eeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEE
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKN--------RSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRII  145 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~--------~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~  145 (634)
                      ++|+| +....+++.+..+|.++|.|..        +..+.++.++.++|||||+|.+.++| +|+..|||..|.||+|+
T Consensus        16 l~V~n-Lp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~   94 (99)
T 2la6_A           16 IFVQG-LGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIK   94 (99)
T ss_dssp             EEEEC-CCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             EEEeC-CCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEE
Confidence            34444 4456678888899999998887        77777777778899999999999999 99999999999999999


Q ss_pred             EccCc
Q 048615          146 EGDAI  150 (634)
Q Consensus       146 V~~a~  150 (634)
                      |.++.
T Consensus        95 V~~A~   99 (99)
T 2la6_A           95 VSFAT   99 (99)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            99863

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

Probab=98.95  E-value=2.2e-09  Score=97.99  Aligned_cols=81  Identities=14%  Similarity=0.156  Sum_probs=67.5

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+.|||+|.++.+|++|+.  +|.
T Consensus        58 ~~~~~~~~l~v-~nlp~~~~-~~~l~~~f~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~  128 (140)
T 2ku7_A           58 GSATTKRVLYV-GGLAEEVD-DKVLHAAFIPFGDITDIQIPLDYE-------TEKHRGFAFVEFELAEDAAAAIDNMNES  128 (140)
T ss_dssp             SSCSSCCEEEE-ECCCTTCC-HHHHHHHHGGGSCEEEEECCCCTT-------TCCCCSEEEEEESCHHHHHHHHHHSTEE
T ss_pred             CCCCCCcEEEE-EeCCCCCC-HHHHHHHHHhcCCEEEEEEeecCC-------CCCcCcEEEEEECCHHHHHHHHHHhCCC
Confidence            34567899999 89999997 999999999999999999875531       11122799999999999999995  699


Q ss_pred             ccCCceeEEEEe
Q 048615          537 SWQGHDLQFTWL  548 (634)
Q Consensus       537 ~~~g~~l~l~W~  548 (634)
                      .|.|+.|++.|.
T Consensus       129 ~~~g~~l~v~~A  140 (140)
T 2ku7_A          129 ELFGRTIRVNLA  140 (140)
T ss_dssp             EETTEEEEEEC-
T ss_pred             EECCEEEEEEeC
Confidence            999999999983

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=98.95  E-value=1.3e-09  Score=97.93  Aligned_cols=86  Identities=14%  Similarity=0.210  Sum_probs=70.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCcc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSW  538 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~  538 (634)
                      .+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.+..+|++|+. +|..|
T Consensus        32 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~l~g~~~  102 (124)
T 2jwn_A           32 KEIDKRSVYV-GNVDYGST-AQDLEAHFSSCGSINRITILCDKF-------SGHPKGYAYIEFAERNSVDAAVAMDETVF  102 (124)
T ss_dssp             HHHHHTEEEE-EEECTTCC-HHHHHHHHHTTSCEEEEEEEEECT-------TSSCEEEEEEEESSHHHHHHHHTTTTCEE
T ss_pred             ccCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEecCC-------CCCcccEEEEEECCHHHHHHHHhcCCCeE
Confidence            3445789999 89999997 999999999999999999865421       01112799999999999999993 48999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+..+.
T Consensus       103 ~g~~l~V~~a~~~~~~  118 (124)
T 2jwn_A          103 RGRTIKVLPKRTNMPG  118 (124)
T ss_dssp             TTEECEEEESSCCCSS
T ss_pred             CCeEEEEEECCCCCCC
Confidence            9999999998876554

>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=98.95  E-value=1.9e-09  Score=97.13  Aligned_cols=84  Identities=14%  Similarity=0.276  Sum_probs=70.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~~  539 (634)
                      ...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+  ++|..|.
T Consensus        20 ~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   90 (126)
T 3ex7_B           20 VEGWILFV-TGVHEEAT-EEDIHDKFAEYGEIKNIHLNLDRR-------TGYLKGYTLVEYETYKEAQAAMEGLNGQDLM   90 (126)
T ss_dssp             SSSEEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCBCTT-------TSSBCSCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCccceEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            34689999 89999997 999999999999999999865431       1111279999999999999998  4799999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|.+.|..+....
T Consensus        91 g~~l~v~~a~~~~~~  105 (126)
T 3ex7_B           91 GQPISVDWCFVRGPP  105 (126)
T ss_dssp             SSBCEEEESEESSSC
T ss_pred             CeEEEEEEecCCCCC
Confidence            999999999876654

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=98.94  E-value=1.3e-09  Score=97.59  Aligned_cols=80  Identities=10%  Similarity=0.098  Sum_probs=66.9

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhccc-ceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYG-DLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fG-ei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+..++|+| ++||..++ +++|+++|.+|| +|..|.+....          + .+++||+|.++.+|++|+.  +|..
T Consensus        25 p~~~~~l~V-gnLp~~~t-e~dL~~~F~~~G~~v~~v~i~~~~----------~-rGfaFV~F~~~e~A~~Ai~~lng~~   91 (111)
T 2jvr_A           25 PAKRYRITM-KNLPEGCS-WQDLKDLARENSLETTFSSVNTRD----------F-DGTGALEFPSEEILVEALERLNNIE   91 (111)
T ss_dssp             CCCCEEEEE-ECSSCCCC-HHHHHHHHHHHTCCCSEEECSSCS----------S-SCCEEEEESSHHHHHHHHHHTTTEE
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHHHhCCeeEEEEEEcCC----------C-CCEEEEEECCHHHHHHHHHHcCCCE
Confidence            345689999 89999997 999999999999 99999985321          1 2799999999999999994  6999


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      |.|+.|++.|...+++
T Consensus        92 l~Gr~i~V~~a~~~p~  107 (111)
T 2jvr_A           92 FRGSVITVERDDNPPP  107 (111)
T ss_dssp             ETTEEEEEEESCC---
T ss_pred             ECCeEEEEEECCCCCC
Confidence            9999999999875543

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

Probab=98.94  E-value=4.7e-09  Score=91.28  Aligned_cols=86  Identities=15%  Similarity=0.120  Sum_probs=70.2

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCc
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKS  537 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~  537 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+|| |.+|.+..+..       .....+++||+|.+..+|++|+. +|..
T Consensus        10 ~~~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~g-i~~v~i~~~~~-------~g~~~g~afV~f~~~~~a~~A~~l~g~~   79 (103)
T 2dng_A           10 LPTEPPYTAYV-GNLPFNTV-QGDIDAIFKDLS-IRSVRLVRDKD-------TDKFKGFCYVEFDEVDSLKEALTYDGAL   79 (103)
T ss_dssp             CCSSSCEEEEE-ESCCTTCC-HHHHHHHTTTSC-EEEEEEEECSS-------SCSEEEEEEEEESSHHHHHHHGGGTTCE
T ss_pred             CCCCCCeEEEE-eCCCCCCC-HHHHHHHHHhCC-ceEEEEeecCC-------CCccceEEEEEECCHHHHHHHHhhCCCe
Confidence            34566899999 89999997 999999999997 99999875431       00112689999999999999983 4999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        80 ~~g~~l~V~~a~~~~~~   96 (103)
T 2dng_A           80 LGDRSLRVDIAEGRKQD   96 (103)
T ss_dssp             ETTEECEEEECCCCCCC
T ss_pred             ECCeEEEEEEecCCCCC
Confidence            99999999998876654

>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=98.94  E-value=2.3e-09  Score=99.74  Aligned_cols=77  Identities=19%  Similarity=0.140  Sum_probs=68.6

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ...+++|+| ++||..++ +++|+++|.+||+|.+|.+..+.            .+++||+|.+..+|++|+.  +|..|
T Consensus        70 ~~~~~~l~V-~nl~~~~t-~~~l~~~F~~~G~i~~v~i~~~~------------~g~afV~f~~~~~a~~A~~~l~g~~~  135 (150)
T 2i2y_A           70 CPLDCKVYV-GNLGNNGN-KTELERAFGYYGPLRSVWVARNP------------PGFAFVEFEDPRDAADAVRELDGRTL  135 (150)
T ss_dssp             STTSCEEEE-ESCCSCCS-CHHHHHHHHHHSCEEEEEECSSS------------CSEEEEEESSHHHHHHHHHHHSSSCS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhhCCEEEEEEeeCC------------CcEEEEEECCHHHHHHHHHHcCCCEE
Confidence            455789999 89999997 89999999999999999997652            2799999999999999985  79999


Q ss_pred             CCceeEEEEeCCC
Q 048615          539 QGHDLQFTWLMPS  551 (634)
Q Consensus       539 ~g~~l~l~W~~~~  551 (634)
                      .|+.|++.|..+.
T Consensus       136 ~g~~l~v~~a~~~  148 (150)
T 2i2y_A          136 CGCRVRVELSNGE  148 (150)
T ss_dssp             SSSCCEEEECCCC
T ss_pred             CCeEEEEEEcCCC
Confidence            9999999998765

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=98.94  E-value=2.7e-10  Score=107.81  Aligned_cols=78  Identities=13%  Similarity=0.112  Sum_probs=67.1

Q ss_pred             cccccCCCccccccccccceeeec--ceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIG--SSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig--~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.|+| +....+++.+..+|.++|  .|..++++.++.++.++|||||+|.+.++| +||..|||..|+||+|+|.++.+
T Consensus        58 lfVgn-Lp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a~~  136 (156)
T 3n9u_C           58 VYVGS-FSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATR  136 (156)
T ss_dssp             EEEEC-CCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEECCH
T ss_pred             EEEeC-CCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEcCC
Confidence            34444 445667888999999999  888888888888888999999999999999 99999999999999999999976


Q ss_pred             cC
Q 048615          152 KN  153 (634)
Q Consensus       152 k~  153 (634)
                      +.
T Consensus       137 ~~  138 (156)
T 3n9u_C          137 QN  138 (156)
T ss_dssp             HH
T ss_pred             Cc
Confidence            43

>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=98.94  E-value=3.9e-10  Score=97.99  Aligned_cols=70  Identities=20%  Similarity=0.133  Sum_probs=61.3

Q ss_pred             CCccccccccccceeeecceeeeeccccc-cCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEK-IDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k-~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +....+++.+..+|+++| |..+..+.++ .++.++|||||+|.+.++| +|| .|||..|.||+|+|.++.++
T Consensus        27 Lp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a~~~   98 (100)
T 2j76_E           27 LPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVADQA   98 (100)
T ss_dssp             CSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEECCCS
T ss_pred             CCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEeccCC
Confidence            344567888899999999 8888888877 4678899999999999999 999 99999999999999998764

>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=98.94  E-value=2.3e-09  Score=91.88  Aligned_cols=80  Identities=19%  Similarity=0.213  Sum_probs=67.5

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHH----HHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLK----EHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SG  535 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~----~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g  535 (634)
                      ...++|+| ++||..++ +++|+    ++|.+||+|.+|.+....         .+ .++|||+|.+..+|++|+.  +|
T Consensus         6 ~~~~~l~V-~nLp~~~~-~~~l~~~l~~~f~~~G~i~~v~i~~~~---------~~-~g~afV~f~~~~~A~~A~~~l~g   73 (97)
T 1nu4_A            6 RPNHTIYI-NNLNEKIK-KDELKKSLHAIFSRFGQILDILVSRSL---------KM-RGQAFVIFKEVSSATNALRSMQG   73 (97)
T ss_dssp             CCCSEEEE-ESCCTTSC-HHHHHHHHHHHHGGGSCEEEEECCHHH---------HH-TTCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHHHHHhCCCEEEEEEEcCC---------Cc-CcEEEEEeCCHHHHHHHHHHhCC
Confidence            34689999 89999997 88888    999999999999986321         01 1689999999999999985  79


Q ss_pred             CccCCceeEEEEeCCCCC
Q 048615          536 KSWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       536 ~~~~g~~l~l~W~~~~~~  553 (634)
                      ..|.|+.|++.|..+...
T Consensus        74 ~~~~g~~l~v~~a~~~~~   91 (97)
T 1nu4_A           74 FPFYDKPMRIQYAKTDSD   91 (97)
T ss_dssp             CEETTEECEEEECSSCCT
T ss_pred             CEECCcEEEEEEccCCCc
Confidence            999999999999887643

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.94  E-value=3.4e-09  Score=91.73  Aligned_cols=82  Identities=12%  Similarity=0.206  Sum_probs=66.7

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.   +....        .....+++||+|.+..+|++|+.  +|..
T Consensus        11 ~~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~g~v~---~~~~~--------~g~~~g~afV~f~~~~~A~~A~~~l~g~~   77 (101)
T 2fc9_A           11 WSGESKTLVL-SNLSYSAT-EETLQEVFEKATFIK---VPQNQ--------NGKSKGYAFIEFASFEDAKEALNSCNKRE   77 (101)
T ss_dssp             CSCCCSEEEE-ESCCTTCC-HHHHHHHCSSCSEEE---CCBCS--------SSCBCSEEEEECSSHHHHHHHHHHTSSEE
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCEEE---EEECC--------CCCEeeEEEEEECCHHHHHHHHHHhCCCE
Confidence            4667899999 89999997 999999999999983   22111        01112799999999999999996  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        78 ~~g~~l~v~~a~~~~~~   94 (101)
T 2fc9_A           78 IEGRAIRLELQGPRGSP   94 (101)
T ss_dssp             ETTEEEEEEECSSCCCC
T ss_pred             eCCeEEEEEEcCCCCCC
Confidence            99999999999887654

>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=98.93  E-value=1.1e-09  Score=94.10  Aligned_cols=85  Identities=13%  Similarity=0.198  Sum_probs=67.8

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+..+++|+| ++||..++ +++|+++|.+||.|..|.+.....       .....++|||+|.+..+|++|+.  +|.
T Consensus        10 ~~~~~~~~l~v-~nLp~~~t-~~~l~~~F~~~G~v~~~~~~~~~~-------~g~~~g~afV~f~~~~~a~~Ai~~l~g~   80 (98)
T 2cqp_A           10 SGKPGPTIIKV-QNMPFTVS-IDEILDFFYGYQVIPGSVCLKYNE-------KGMPTGEAMVAFESRDEATAAVIDLNDR   80 (98)
T ss_dssp             CCCCSSEEEEE-ESCCTTCC-HHHHHHHTTTSCCCTTTCEEEECS-------SSCEEEEEEEEESCHHHHHHHHHHTTTC
T ss_pred             CCCCCCCEEEE-eCCCCCCC-HHHHHHHHHHcCCccceEEEEECC-------CCCeeeEEEEEECCHHHHHHHHHHhCCC
Confidence            35677899999 89999997 999999999999997655432210       01112789999999999999995  599


Q ss_pred             ccCCceeEEEEeCCCC
Q 048615          537 SWQGHDLQFTWLMPSS  552 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~  552 (634)
                      .|.|+.|++.|...+.
T Consensus        81 ~~~g~~l~V~~a~~~~   96 (98)
T 2cqp_A           81 PIGSRKVKLVLGSGPS   96 (98)
T ss_dssp             EETTEECEEEESSCSS
T ss_pred             eeCCeEEEEEEcCCCC
Confidence            9999999999976543

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=98.93  E-value=3.7e-09  Score=93.53  Aligned_cols=87  Identities=11%  Similarity=0.164  Sum_probs=67.8

Q ss_pred             cccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CC
Q 048615          458 YKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GK  536 (634)
Q Consensus       458 ~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~  536 (634)
                      ..-+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .++|||+|.+..+|++|+.. |.
T Consensus        19 ~~~~~~~~~lfV-~nLp~~~t-e~~L~~~F~~~G~i~~v~i~~~~~------tg~~-kg~afV~f~~~~~A~~Ai~~~~~   89 (109)
T 2rs2_A           19 SHMGSSGCKMFI-GGLSWQTT-QEGLREYFGQFGEVKECLVMRDPL------TKRS-RGFGFVTFMDQAGVDKVLAQSRH   89 (109)
T ss_dssp             -------CCEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEEECCCTT------TCCC-TTCEEEEESSHHHHHHHHHSSCE
T ss_pred             cccCCCCCEEEE-eCCCCCCC-HHHHHHHHHccCCeEEEEEEECCC------CCCc-CcEEEEEECCHHHHHHHHHHCCC
Confidence            345667899999 89999997 999999999999999999876531      0112 27999999999999999965 77


Q ss_pred             ccCCceeEEEEeCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~  553 (634)
                      .|.|+.|++.|..+...
T Consensus        90 ~l~g~~l~V~~a~~~~~  106 (109)
T 2rs2_A           90 ELDSKTIDPKVAFPRRA  106 (109)
T ss_dssp             EETTEEEEEEECCCCCC
T ss_pred             cCCCEEEEEEEccCCCC
Confidence            88999999999887654

>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=98.93  E-value=6.3e-09  Score=90.64  Aligned_cols=85  Identities=14%  Similarity=0.141  Sum_probs=70.1

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      +..+++|+| ++||..++ +++|+++|.+|| |.+|.+..+..     +...+ .++|||+|.+..+|++|+. +|..|.
T Consensus        12 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G-i~~v~i~~~~~-----~~g~~-~g~afV~f~~~~~a~~A~~l~g~~~~   82 (104)
T 1wi8_A           12 KSPPYTAFL-GNLPYDVT-EESIKEFFRGLN-ISAVRLPREPS-----NPERL-KGFGYAEFEDLDSLLSALSLNEESLG   82 (104)
T ss_dssp             SSSCEEEEE-ESCCSSCC-HHHHHHHTTTSC-EEEEECCBCSS-----CTTSB-CSCEEEEESSHHHHHHHHGGGTCEET
T ss_pred             CCCCCEEEE-eCCCCcCC-HHHHHHHHHHCC-ceEEEEecCCC-----CCCCc-CeEEEEEECCHHHHHHHHhcCCCEeC
Confidence            456799999 89999997 999999999999 99999875531     00011 2699999999999999993 499999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+....
T Consensus        83 g~~l~V~~a~~~~~~   97 (104)
T 1wi8_A           83 NKRIRVDVADQAQDK   97 (104)
T ss_dssp             TEECEEEECCCCCCC
T ss_pred             CcEEEEEEccCCCCC
Confidence            999999998887654

>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=98.93  E-value=2.9e-09  Score=93.31  Aligned_cols=83  Identities=16%  Similarity=0.172  Sum_probs=67.9

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccc-eeEEEec-CCccccCCCCCCCCCCceEEEEecChHHHHHHHH---cC-C
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGD-LASVELE-DGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL---SG-K  536 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGe-i~sv~~~-~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~---~g-~  536 (634)
                      -.++|+| ++||..++ +++|+++|.+||+ |.+|.+. .+.      ....+ .++|||+|.++.+|++|+.   +| .
T Consensus         7 ~~~~l~V-~nLp~~~t-~~~l~~~f~~~G~~v~~v~i~~~~~------~~g~~-~g~afV~f~~~~~A~~A~~~l~~g~~   77 (109)
T 2dis_A            7 GNCRLFI-GGIPKMKK-REEILEEIAKVTEGVLDVIVYASAA------DKMKN-RGFAFVEYESHRAAAMARRKLMPGRI   77 (109)
T ss_dssp             CSEEEEE-ECCCTTSC-HHHHHHHHHHHSTTEEEEECCSSSC------TTTTT-CCEEEEEESSHHHHHHHHTTTTTCCS
T ss_pred             CCCEEEE-eCCCCcCC-HHHHHHHHHHhcCCceEEEEEccCC------CCCCc-CcEEEEEecCHHHHHHHHHHhhCCCc
Confidence            3689999 89999997 9999999999998 9999986 221      00112 2799999999999999986   34 7


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|++.|..+....
T Consensus        78 ~~~g~~l~V~~a~~~~~~   95 (109)
T 2dis_A           78 QLWGHQIAVDWAEPEIDV   95 (109)
T ss_dssp             CBTTBCCEEEESCSSCST
T ss_pred             eecCCeEEEEEcCCCCCc
Confidence            899999999999877653

>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=98.92  E-value=2e-09  Score=96.54  Aligned_cols=75  Identities=15%  Similarity=0.168  Sum_probs=65.9

Q ss_pred             cceEEEcCCCCCC-CCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCCcc
Q 048615          464 PTAFRIMPPLPVG-FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGKSW  538 (634)
Q Consensus       464 ~t~l~V~~~l~~~-~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~~~  538 (634)
                      .++|+| ++||.. ++ +++|+++|.+||+|.+|.+...+             ++|||+|.+..+|++|+.    ++..|
T Consensus        25 ~~~l~V-~NLp~~~~t-e~~L~~lF~~fG~V~~v~i~~~k-------------g~aFVef~~~~~A~~Ai~~l~~~~~~l   89 (112)
T 1x4f_A           25 GRVIHL-SNLPHSGYS-DSAVLKLAEPYGKIKNYILMRMK-------------SQAFIEMETREDAMAMVDHCLKKALWF   89 (112)
T ss_dssp             CCEEEE-ESCCCSSCC-SHHHHTTTTTTSCCSEEEEETTT-------------TEEEEECSSHHHHHHHHHHHHHSCCCS
T ss_pred             CCEEEE-eCCCCccCC-HHHHHHHHHhcCCEEEEEEecCC-------------CEEEEEECCHHHHHHHHHHhccCCceE
Confidence            678999 899997 87 89999999999999999997655             799999999999999986    25679


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|......
T Consensus        90 ~Gr~l~V~~a~~~~~  104 (112)
T 1x4f_A           90 QGRCVKVDLSEKYKK  104 (112)
T ss_dssp             SSSCCEEEEECSCSS
T ss_pred             CCEEEEEEECccccc
Confidence            999999999876543

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=98.92  E-value=3.2e-09  Score=97.28  Aligned_cols=85  Identities=16%  Similarity=0.207  Sum_probs=70.9

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|..||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|
T Consensus        39 ~~~~~~l~V-~nLp~~~~-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~A~~~l~g~~~  109 (139)
T 1u6f_A           39 PDVLRNLMV-NYIPTTVD-EVQLRQLFERYGPIESVKIVCDRE-------TRQSRGYGFVKFQSGSSAQQAIAGLNGFNI  109 (139)
T ss_dssp             TTTTSEEEE-ESCSTTCC-HHHHHHHHHHHSCEEEEEEEEETT-------TTEEEEEEEEEESSHHHHHHHHHHTTTEEC
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEEcCC-------CCCcceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            455789999 89999997 999999999999999999875431       00112689999999999999996  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus       110 ~g~~l~v~~a~~~~~~  125 (139)
T 1u6f_A          110 LNKRLKVALAASGHQR  125 (139)
T ss_dssp             SSCEEEEEESSCCCCC
T ss_pred             CCeEEEEEECCCCCCC
Confidence            9999999999887654

>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=98.92  E-value=6.3e-10  Score=101.78  Aligned_cols=78  Identities=21%  Similarity=0.194  Sum_probs=66.8

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.++.
T Consensus        49 l~V~n-Lp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~~~~  127 (129)
T 2kxn_B           49 LGVFG-LSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKR  127 (129)
T ss_dssp             BCEET-CTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCSSSS
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCC
Confidence            34444 455667888899999999988888888887778899999999999999 9999999999999999999997654

>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=98.91  E-value=5.4e-09  Score=97.69  Aligned_cols=85  Identities=20%  Similarity=0.277  Sum_probs=71.6

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .+++||+|.++.+|++|+.  +|..|
T Consensus        67 ~~~~~~l~v-~nl~~~~~-~~~l~~~F~~~G~v~~~~i~~~~~------~g~~-~g~afV~f~~~~~a~~A~~~l~g~~~  137 (158)
T 2kn4_A           67 VEGMTSLKV-DNLTYRTS-PDTLRRVFEKYGRVGDVYIPRDRY------TKES-RGFAFVRFHDKRDAEDAMDAMDGAVL  137 (158)
T ss_dssp             CCBCCEEEE-ESCCTTCC-HHHHHHHHHHHSCEEEEECCCCSS------CTTS-CCEEEEEESBHHHHHHHHHHSTTEES
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeecCC------CCcc-ceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            455789999 89999997 999999999999999999876531      0112 2799999999999999995  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+..+.
T Consensus       138 ~g~~l~v~~a~~~~~~  153 (158)
T 2kn4_A          138 DGRELRVQMARYGRPP  153 (158)
T ss_dssp             SSSEEEEEEECCSSCC
T ss_pred             CCeEEEEEECCCCCCC
Confidence            9999999999887654

>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=98.91  E-value=3.4e-09  Score=92.57  Aligned_cols=78  Identities=17%  Similarity=0.285  Sum_probs=66.7

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....+++||+|.+..+|++|+.  +|..|.
T Consensus        27 ~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   96 (107)
T 3ulh_A           27 ETGGKLLV-SNLDFGVS-DADIQELFAEFGTLKKAAVHYDRS--------GRSLGTADVHFERKADALKAMKQYNGVPLD   96 (107)
T ss_dssp             CCSEEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEEECTT--------SCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEECCC--------CCcceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            45789999 89999997 999999999999999999875421        0112699999999999999986  799999


Q ss_pred             CceeEEEEeC
Q 048615          540 GHDLQFTWLM  549 (634)
Q Consensus       540 g~~l~l~W~~  549 (634)
                      |+.|++.|.+
T Consensus        97 g~~l~V~~a~  106 (107)
T 3ulh_A           97 GRPMNIQLVT  106 (107)
T ss_dssp             TEECEEEEEC
T ss_pred             CcEEEEEEeC
Confidence            9999999975

>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=98.91  E-value=2.8e-09  Score=94.01  Aligned_cols=74  Identities=9%  Similarity=0.014  Sum_probs=65.5

Q ss_pred             cceEEEcCCCCC-CCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cC--Ccc
Q 048615          464 PTAFRIMPPLPV-GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SG--KSW  538 (634)
Q Consensus       464 ~t~l~V~~~l~~-~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g--~~~  538 (634)
                      .++|+| ++||. .++ +++|+++|.+||+|.+|.+...+             ++|||+|.+..+|++|+.  +|  ..|
T Consensus        15 ~~~l~V-~nLp~~~~t-e~dL~~lF~~fG~V~~v~i~~~k-------------g~aFVef~~~~~A~~Ai~~l~~~~~~~   79 (102)
T 1x4d_A           15 RRVVHI-MDFQRGKNL-RYQLLQLVEPFGVISNHLILNKI-------------NEAFIEMATTEDAQAAVDYYTTTPALV   79 (102)
T ss_dssp             CCEEEE-ESCCCSSSH-HHHHHTTTGGGSCEEEEEECSSS-------------SCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCEEEE-eCCCCCcCC-HHHHHHHHHhcCCEEEEEEEcCC-------------CEEEEEECCHHHHHHHHHHHcCCCceE
Confidence            578999 89999 887 99999999999999999998665             689999999999999986  34  469


Q ss_pred             CCceeEEEEeCCCC
Q 048615          539 QGHDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g~~l~l~W~~~~~  552 (634)
                      .|+.|++.|.....
T Consensus        80 ~Gr~l~V~~a~~~~   93 (102)
T 1x4d_A           80 FGKPVRVHLSQKYK   93 (102)
T ss_dssp             TTEECEEEEECCCT
T ss_pred             CCcEEEEEECCCCC
Confidence            99999999988654

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

Probab=98.90  E-value=2.5e-09  Score=95.22  Aligned_cols=81  Identities=21%  Similarity=0.195  Sum_probs=67.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+...++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....+++||+|.+..+|++|+.  +|..
T Consensus        36 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~~~i~~~~~-------~g~~~g~afV~f~~~~~A~~A~~~l~g~~  106 (118)
T 2khc_A           36 EGPEGCNLFI-YHLPQEFT-DTDLASTFLPFGNVISAKVFIDKQ-------TSLSKCFGFVSFDNPDSAQVAIKAMNGFQ  106 (118)
T ss_dssp             CCCCSEEEEE-ECSCTTCC-HHHHHHHTTTSCEEEEEEECCCSS-------SSCCCCEEEEEEESSHHHHHHHHHCCCCE
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEeCCC-------CCCcCcEEEEEECCHHHHHHHHHHcCCCE
Confidence            3556789999 89999997 999999999999999999875531       01112799999999999999996  5999


Q ss_pred             cCCceeEEEEeC
Q 048615          538 WQGHDLQFTWLM  549 (634)
Q Consensus       538 ~~g~~l~l~W~~  549 (634)
                      |.|+.|++.|.+
T Consensus       107 ~~g~~l~V~~ak  118 (118)
T 2khc_A          107 VGTKRLKVQLKK  118 (118)
T ss_dssp             ETTEECCEEEC-
T ss_pred             ECCEEEEEEecC
Confidence            999999999953

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=98.90  E-value=7.1e-09  Score=93.29  Aligned_cols=84  Identities=17%  Similarity=0.263  Sum_probs=70.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ....++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....++|||+|.++.+|++|+.  +|..|
T Consensus        32 ~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~v~i~~~~~--------g~~~g~afV~f~~~~~A~~Ai~~l~g~~~  101 (124)
T 2kt5_A           32 VETGAKLLV-SNLDFGVS-DADIQELFAEFGTLKKAAVDYDRS--------GRSLGTADVHFERRADALKAMKQYKGVPL  101 (124)
T ss_dssp             CSSCEEEEE-ESCCSSCC-HHHHHHHHHTTSCCSEEEEECCSS--------SSCCSEEEEEESSHHHHHHHHHHHTTEES
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeeEEEEEECCC--------CCEeeEEEEEECCHHHHHHHHHHcCCCEE
Confidence            456789999 89999997 999999999999999999875431        1112799999999999999985  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+....
T Consensus       102 ~g~~l~V~~a~~~~~~  117 (124)
T 2kt5_A          102 DGRPMDIQLVASQIDL  117 (124)
T ss_dssp             SSCEEEEEEECCTTCC
T ss_pred             CCcEEEEEEeCCCCCC
Confidence            9999999998876543

>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=98.90  E-value=3.4e-10  Score=96.77  Aligned_cols=76  Identities=11%  Similarity=0.068  Sum_probs=61.6

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.|+| +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +||..|||..|.||+|+|.++.+
T Consensus        18 l~V~n-lp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~s   94 (95)
T 2ek1_A           18 IKVQN-MPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPSS   94 (95)
T ss_dssp             EEEEC-CCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC-
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEeccC
Confidence            34444 445567778888888888877666666666777899999999999999 99999999999999999998753

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=98.90  E-value=4.7e-10  Score=91.76  Aligned_cols=68  Identities=7%  Similarity=0.041  Sum_probs=58.6

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +|+. |||..+.|++|+|.+|
T Consensus         7 lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            7 LSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            334567778888999999988888888877778899999999999999 8885 9999999999999875

>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=98.89  E-value=2.8e-09  Score=90.99  Aligned_cols=78  Identities=14%  Similarity=0.245  Sum_probs=60.5

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCc--
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKS--  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~--  537 (634)
                      .++-+++|+| |+||..++ +++|+++|.+||+|.+|.+....            .++|||+|.++.+|+++  +|..  
T Consensus         7 ~~~~~~~l~V-~~Lp~~~t-e~~L~~~F~~~G~i~~v~i~~~s------------rGfaFV~F~~~~~A~~~--~~~~~~   70 (89)
T 3d2w_A            7 HHHHGSKVFV-GRCTEDMT-AEELQQFFCQYGEVVDVFIPKPF------------RAFAFVTFADDKVAQSL--CGEDLI   70 (89)
T ss_dssp             ----CCEEEE-ESCCTTCC-HHHHHHHHTTTSCEEEEECCSSC------------CSEEEEEESCHHHHHHH--TTCEEE
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHhccCCEEEEEEeeCC------------CCEEEEEECCHHHHHHH--cCCCcc
Confidence            4667899999 89999998 99999999999999999987531            27999999999999953  4554  


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      +.|+.|.+.|..+...
T Consensus        71 ~~g~~v~v~~a~~k~~   86 (89)
T 3d2w_A           71 IKGISVHISNAEPKHN   86 (89)
T ss_dssp             ETTEEEEEEECC----
T ss_pred             cCCEEEEEEEcCCCCc
Confidence            4589999999877643

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.89  E-value=3.1e-10  Score=95.08  Aligned_cols=70  Identities=7%  Similarity=0.120  Sum_probs=61.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +|+..|||..|.||.|+|.++.
T Consensus        13 lp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~~   83 (85)
T 1x4e_A           13 LQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGPS   83 (85)
T ss_dssp             CCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCCC
T ss_pred             CCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCCC
Confidence            344567778888999999988888888877788899999999999999 9999999999999999998765

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=98.89  E-value=3.7e-09  Score=97.34  Aligned_cols=85  Identities=19%  Similarity=0.261  Sum_probs=71.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +..+++|+| ++||..++ +++|+++|.+||+|..|.+..+..       .....+++||+|.++.+|++|+.  +|..|
T Consensus        44 ~~~~~~l~V-~nLp~~~t-e~~L~~~F~~~G~i~~v~i~~~~~-------~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i  114 (135)
T 2lea_A           44 VEGMTSLKV-DNLTYRTS-PDTLRRVFEKYGRVGDVYIPRDRY-------TKESRGFAFVRFHDKRDAEDAMDAMDGAVL  114 (135)
T ss_dssp             GGGCCCEEE-ECCCSSCH-HHHHHHHHGGGSCCSEEECCCCSS-------SSSCCSCCEEECSCHHHHHHHHTTTTTCCS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEecCC-------CCccceEEEEEECCHHHHHHHHHHcCCCEE
Confidence            445789999 89999997 999999999999999999875431       11122699999999999999995  69999


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..+..+.
T Consensus       115 ~g~~l~V~~a~~~~~~  130 (135)
T 2lea_A          115 DGRELRVQMARYGRPP  130 (135)
T ss_dssp             SSSCCEEEECCCCCCC
T ss_pred             CCEEEEEEECCCCCCC
Confidence            9999999999887654

>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=98.89  E-value=4.7e-09  Score=92.97  Aligned_cols=78  Identities=15%  Similarity=0.194  Sum_probs=67.1

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      .+++|+| ++||..++ +++|+++|.+||.|.+|.+..+..         + .++|||+|.+..+|++|+.  +|..|.|
T Consensus         7 ~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~v~~v~i~~~~~---------~-~g~afV~f~~~~~A~~A~~~l~g~~~~g   74 (115)
T 3lqv_A            7 VNRILYI-RNLPYKIT-AEEMYDIFGKYGPIRQIRVGNTPE---------T-RGTAYVVYEDIFDAKNAVDHLSGFNVSN   74 (115)
T ss_dssp             CCSEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEECSTT---------T-TTCEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEeeCCC---------C-CcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            3578999 89999997 999999999999999999864320         1 2799999999999999985  6999999


Q ss_pred             ceeEEEEeCCCC
Q 048615          541 HDLQFTWLMPSS  552 (634)
Q Consensus       541 ~~l~l~W~~~~~  552 (634)
                      +.|++.|..+..
T Consensus        75 ~~l~v~~a~~~~   86 (115)
T 3lqv_A           75 RYLVVLYYNANR   86 (115)
T ss_dssp             CBCEEEECCHHH
T ss_pred             eEEEEEEecCCh
Confidence            999999987544

>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=98.89  E-value=5.4e-09  Score=97.81  Aligned_cols=86  Identities=16%  Similarity=0.197  Sum_probs=71.6

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      ....+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..
T Consensus        35 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~A~~Ai~~l~g~~  105 (156)
T 1h2v_Z           35 LLKKSCTLYV-GNLSFYTT-EEQIYELFSKSGDIKKIIMGLDKM-------KKTACGFCFVEYYSRADAENAMRYINGTR  105 (156)
T ss_dssp             TTTTCCEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TCCEEEEEEEEESSHHHHHHHHHHTTTSE
T ss_pred             cCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCccceEEEEEECCHHHHHHHHHHhCCCE
Confidence            3456789999 89999997 999999999999999999965431       00112699999999999999996  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|.++....
T Consensus       106 ~~g~~l~V~~a~~~~~~  122 (156)
T 1h2v_Z          106 LDDRIIRTDWDAGFKEG  122 (156)
T ss_dssp             ETTEECEEEEESCCCTT
T ss_pred             ECCeEEEEEECCCCCCc
Confidence            99999999999876654

>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=98.89  E-value=3e-09  Score=94.63  Aligned_cols=84  Identities=11%  Similarity=0.082  Sum_probs=69.3

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccce-eEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDL-ASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei-~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~  536 (634)
                      ..+...++|+| ++||..++ +++|++||..||.| .+|.+..+..        -...++|||+|.+..+|++|+. +|.
T Consensus        10 ~~~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~g~v~~~v~i~~d~~--------g~~~G~afV~F~~~~~a~~Al~~~~~   79 (114)
T 2cpy_A           10 DVNSAKVCAHI-TNIPFSIT-KMDVLQFLEGIPVDENAVHVLVDNN--------GQGLGQALVQFKNEDDARKSERLHRK   79 (114)
T ss_dssp             SCCSCCCEEEE-ESCCTTSC-HHHHHHHTTTSCCCSTTEEECCCTT--------SSCSSCEEEECSSHHHHHHHGGGCSE
T ss_pred             CCCCCccEEEE-eCcCCcCC-HHHHHHHHHhCCCcCCeEEEEECCC--------CCcceEEEEEECCHHHHHHHHHhCCC
Confidence            35566788999 89999997 99999999999999 7888764331        1113799999999999999985 588


Q ss_pred             ccCCceeEEEEeCCCC
Q 048615          537 SWQGHDLQFTWLMPSS  552 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~  552 (634)
                      .|.|+.|++.|..+..
T Consensus        80 ~~~gr~i~v~~a~~~~   95 (114)
T 2cpy_A           80 KLNGREAFVHVVTLED   95 (114)
T ss_dssp             EETTEEEEEEEECHHH
T ss_pred             ccCCeEEEEEECCHHH
Confidence            9999999999987664

>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=98.89  E-value=1.4e-09  Score=97.81  Aligned_cols=73  Identities=16%  Similarity=0.284  Sum_probs=62.3

Q ss_pred             CCEEEEeCCCC--CC-------CCHHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          176 LRTLFVNNVPL--KS-------NRREALLSHFQKFGEVVDIYIPLN--SERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       176 ~~tLfVgnLp~--d~-------~te~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      .+.|.|.|+=.  +.       --+++|++.|++||.|.+|.|.++  +||+||+|.+.++|.+|++.||| .++||.|+
T Consensus         7 s~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~   86 (114)
T 3s6e_A            7 TQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFAGKMIT   86 (114)
T ss_dssp             CSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            56888888732  10       014578999999999999999886  58999999999999999999999 89999999


Q ss_pred             EEeec
Q 048615          244 LWWAN  248 (634)
Q Consensus       244 V~wak  248 (634)
                      |.|+.
T Consensus        87 v~~~~   91 (114)
T 3s6e_A           87 AAYVP   91 (114)
T ss_dssp             EEEEC
T ss_pred             EEEEc
Confidence            99995

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

Probab=98.88  E-value=6.4e-09  Score=89.51  Aligned_cols=79  Identities=14%  Similarity=0.156  Sum_probs=65.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ...+++|+| ++||..++ +++|+++|.+||.|. +.+....          + .++|||+|.+..+|++|+.  +|..|
T Consensus        16 ~~~~~~l~V-~nL~~~~t-~~~l~~~F~~~G~v~-~~~~~~~----------~-~g~afV~f~~~~~a~~A~~~l~g~~~   81 (97)
T 2e5j_A           16 APLAADVYV-GNLPRDAR-VSDLKRALRELGSVP-LRLTWQG----------P-RRRAFLHYPDSAAAQQAVSCLQGLRL   81 (97)
T ss_dssp             SCCCCEEEE-ECCCTTCC-HHHHHHHHHHTTCCC-SEEEEET----------T-TTEEEEECSSHHHHHHHHHHHTTCCS
T ss_pred             CCCCCEEEE-eCCCCcCc-HHHHHHHHHhcCCEE-EEEEcCC----------C-CcEEEEEECCHHHHHHHHHHhCCCEE
Confidence            344789999 89999997 999999999999996 4433221          1 2799999999999999984  69999


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|..+...
T Consensus        82 ~g~~l~V~~a~~~~~   96 (97)
T 2e5j_A           82 GTDTLRVALARQQRD   96 (97)
T ss_dssp             SSSCCEEEECCCCCC
T ss_pred             CCcEEEEEEcCCCCC
Confidence            999999999887654

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

Probab=98.88  E-value=4.6e-09  Score=91.28  Aligned_cols=83  Identities=16%  Similarity=0.171  Sum_probs=69.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhc-ccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc-
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSS-YGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS-  537 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~-fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~-  537 (634)
                      ...++|+| ++||..++ +++|+++|.+ ||+|.+|.+..+..        ....++|||+|.+..+|++|+.  +|.. 
T Consensus         7 ~~~~~l~V-~nLp~~~t-~~~l~~~F~~~~G~v~~v~i~~~~~--------g~~~g~afV~f~~~~~a~~A~~~l~g~~~   76 (104)
T 2dhg_A            7 GPEYSLFV-GDLTPDVD-DGMLYEFFVKVYPSCRGGKVVLDQT--------GVSKGYGFVKFTDELEQKRALTECQGAVG   76 (104)
T ss_dssp             SCCCCEEE-ECCCTTCC-HHHHHHHHHHHCTTEEEEEEEECTT--------CCEEEEEEEEESCHHHHHHHHHHTTTCCS
T ss_pred             CCCcEEEE-eCCCCCCC-HHHHHHHHHHhCCCeEEEEEEECCC--------CCccceEEEEECCHHHHHHHHHHccCCcc
Confidence            34689999 89999997 9999999999 99999999865420        1112799999999999999996  5888 


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|..+....
T Consensus        77 ~~g~~l~v~~a~~~~~~   93 (104)
T 2dhg_A           77 LGSKPVRLSVAIPKASR   93 (104)
T ss_dssp             SSSSCCCCCBCCCCCSC
T ss_pred             cCCEeEEEEEccCCCcC
Confidence            99999999998776543

>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=98.87  E-value=5.4e-09  Score=94.10  Aligned_cols=77  Identities=16%  Similarity=0.182  Sum_probs=65.8

Q ss_pred             cceEEEc-CCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc--
Q 048615          464 PTAFRIM-PPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW--  538 (634)
Q Consensus       464 ~t~l~V~-~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~--  538 (634)
                      +++|+|. |+|+.+++ +++|+++|.+||+|.+|.+...+             +++||+|.++.+|++|+.  +|+.|  
T Consensus        25 t~~L~V~Ng~L~~~~t-e~~L~~~F~~fG~v~~v~i~~~r-------------gfaFV~f~~~~~A~~Ai~~lnG~~~~~   90 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVS-RNQLLPVLEKCGLVDALLMPPNK-------------PYSFARYRTTEESKRAYVTLNGKEVVD   90 (114)
T ss_dssp             CSEEEEETCTGGGTCC-HHHHHHHHHHHSCEEEEECCTTC-------------SCEEEEESSHHHHHHHHHHTTTCEEEC
T ss_pred             CCEEEEECCCCCCCCC-HHHHHHHHHhcCCeEEEEEeCCC-------------CEEEEEECCHHHHHHHHHHhCCCEEcc
Confidence            5668883 56999887 99999999999999999987654             799999999999999995  69877  


Q ss_pred             ---CCceeEEEEeCCCCCC
Q 048615          539 ---QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ---~g~~l~l~W~~~~~~~  554 (634)
                         +|..|.+.|....+.+
T Consensus        91 ~lg~g~~l~v~~a~~~p~~  109 (114)
T 2cq2_A           91 DLGQKITLYLNFVEKVQWS  109 (114)
T ss_dssp             TTSCEEECEEEEESCCCCS
T ss_pred             ccCCCcEEEEEecccCccc
Confidence               6789999998866543

>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=98.87  E-value=2.8e-10  Score=96.46  Aligned_cols=72  Identities=14%  Similarity=0.189  Sum_probs=60.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.+ | +|+..|||..+.|++|+|.++.+..
T Consensus         9 Lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~~   81 (90)
T 2ki2_A            9 LVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPKK   81 (90)
T ss_dssp             ECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC----
T ss_pred             CCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            3445677788889999998888888888877788999999999999 9 9999999999999999999987654

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

Probab=98.87  E-value=3.4e-09  Score=86.79  Aligned_cols=75  Identities=11%  Similarity=0.125  Sum_probs=62.8

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCCcee
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQGHDL  543 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g~~l  543 (634)
                      ++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.. ...|.|+.|
T Consensus         1 ~~l~v-~nlp~~~t-~~~l~~~F~~~G~v~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l   71 (77)
T 1uaw_A            1 CKMFI-GGLSWQTT-QEGLREYFGQFGEVKECLVMRDPL-------TKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTI   71 (77)
T ss_dssp             CCEEE-ESCCSSCC-SHHHHHHHTTTSCCCCEEEECCCC-------SSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCC
T ss_pred             CEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEecCCC-------CCCcCceEEEEEcCHHHHHHHHHhCCCccCCEEE
Confidence            57999 89999997 899999999999999999876531       111227999999999999999964 478899999


Q ss_pred             EEEEe
Q 048615          544 QFTWL  548 (634)
Q Consensus       544 ~l~W~  548 (634)
                      ++.|.
T Consensus        72 ~v~~a   76 (77)
T 1uaw_A           72 DPKVA   76 (77)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            99995

>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=98.87  E-value=2e-08  Score=87.87  Aligned_cols=82  Identities=15%  Similarity=0.155  Sum_probs=67.3

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeE-EEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLAS-VELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~s-v~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      ....++|+| ++||..++ +++|++||.+||.|.. |.+..+.        +-...++|||+|.+..+|++|+.. |..|
T Consensus        12 ~~~~~~l~V-~nLp~~~t-e~~l~~~F~~~G~v~~~v~i~~~~--------~g~~~G~afV~F~~~~~a~~A~~~~~~~~   81 (104)
T 1wg5_A           12 TANDGFVRL-RGLPFGCS-KEEIVQFFSGLEIVPNGMTLPVDF--------QGRSTGEAFVQFASQEIAEKALKKHKERI   81 (104)
T ss_dssp             CSCCCEEEE-ESCCTTCC-HHHHHHHTTTCCEEEEEEECCBCS--------SSCBCSEEEEEESSHHHHHHHHTTTTCCS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCcceeEEEEECC--------CCCcceEEEEEECCHHHHHHHHHhCcchh
Confidence            345689999 89999997 9999999999999987 7765432        111237999999999999999864 8899


Q ss_pred             CCceeEEEEeCCCC
Q 048615          539 QGHDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g~~l~l~W~~~~~  552 (634)
                      .|+.|++.|..+..
T Consensus        82 ~gr~i~v~~~~~~~   95 (104)
T 1wg5_A           82 GHRYIEIFKSSRAE   95 (104)
T ss_dssp             SSSCCEEEEECTTT
T ss_pred             CCcEEEEEECCHHH
Confidence            99999999987654

>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=98.86  E-value=6.3e-09  Score=92.04  Aligned_cols=82  Identities=18%  Similarity=0.242  Sum_probs=67.8

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       ..+ .+++||+|.+..+|++|+.  +|..
T Consensus        21 ~~~~~~~l~V-~nlp~~~t-~~~l~~~F~~~G~i~~~~i~~~~~-------g~~-~g~afV~f~~~~~a~~A~~~l~g~~   90 (114)
T 1x5o_A           21 QEQDPTNLYI-SNLPLSMD-EQELENMLKPFGQVISTRILRDSS-------GTS-RGVGFARMESTEKCEAVIGHFNGKF   90 (114)
T ss_dssp             CCCCTTEEEE-ESCCTTCC-HHHHHHTTTTTSCEEEEEEEECSS-------SCE-EEEEEEEESCHHHHHHHHHHHBTCC
T ss_pred             cCCCCCEEEE-eCCCCCCC-HHHHHHHHHhcCCEEEEEEEECCC-------CCc-ceEEEEEECCHHHHHHHHHHhCCCE
Confidence            3556789999 89999997 999999999999999999875420       011 2689999999999999985  6888


Q ss_pred             c--------CCceeEEEEeCCC
Q 048615          538 W--------QGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~--------~g~~l~l~W~~~~  551 (634)
                      |        .++.|.+.|..|.
T Consensus        91 ~~~~~~~~~~~~~l~v~~a~p~  112 (114)
T 1x5o_A           91 IKTPPGVSAPTEPLLCKFSGPS  112 (114)
T ss_dssp             CCCCTTSCCCSSCBEEEECCCS
T ss_pred             EcCCccccCCCCceeEEccCCC
Confidence            8        5788999998864

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.86  E-value=1.9e-09  Score=95.76  Aligned_cols=72  Identities=6%  Similarity=0.144  Sum_probs=61.3

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM  154 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~  154 (634)
                      ....+++.+..+|.++|.|..+.++.++.++.++|||||+|.+.++| +||.. ||..|.|++|+|.++.++..
T Consensus        36 p~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~~~~  108 (116)
T 1x4b_A           36 SFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVAREE  108 (116)
T ss_dssp             TTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSSCCC
T ss_pred             CCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCCCcc
Confidence            34556777888888888888887888777778899999999999999 99977 99999999999999987653

>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=98.86  E-value=5.7e-10  Score=98.91  Aligned_cols=72  Identities=14%  Similarity=0.183  Sum_probs=62.8

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|.++|.|..+.++.++.++.++|||||+|.+.++| +|| .|||..|.|++|+|.++.++.
T Consensus        33 lp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~~~  105 (114)
T 2cq4_A           33 LAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQAEK  105 (114)
T ss_dssp             CCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHHHH
T ss_pred             CCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCCCc
Confidence            344567788889999999988888888887778899999999999999 999 999999999999999987643

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

Probab=98.85  E-value=6.4e-09  Score=89.02  Aligned_cols=77  Identities=22%  Similarity=0.245  Sum_probs=64.4

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCc
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGH  541 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~  541 (634)
                      ..++|+| ++||..++ +++|+++|.+||+|.+|.+....            ..++||+|.+..+|++|+. +|..|.|+
T Consensus         7 ~~~~l~V-~nl~~~~t-~~~l~~~F~~~G~v~~v~~~~~~------------g~~afV~f~~~~~a~~ai~l~g~~~~g~   72 (94)
T 2e5g_A            7 GLRSVFV-SGFPRGVD-SAQLSEYFLAFGPVASVVMDKDK------------GVFAIVEMGDVGAREAVLSQSQHSLGGH   72 (94)
T ss_dssp             TCCEEEE-ECCCTTCC-HHHHHHHGGGTSCEEEEEECSSS------------CCEEEEEESSHHHHHHHHTCSCCEETTE
T ss_pred             CCCEEEE-ECCCCCCC-HHHHHHHHHhcCCeEEEEEcCCC------------CcEEEEEECCHHHHHHHHhcCCeEECCE
Confidence            4579999 89999997 99999999999999998333221            0289999999999999985 58899999


Q ss_pred             eeEEEEeCCCCC
Q 048615          542 DLQFTWLMPSSS  553 (634)
Q Consensus       542 ~l~l~W~~~~~~  553 (634)
                      .|++.|..+...
T Consensus        73 ~l~V~~a~~~~~   84 (94)
T 2e5g_A           73 RLRVRPREQKEF   84 (94)
T ss_dssp             ECCCBCSCCSCC
T ss_pred             EEEEEECCcCCC
Confidence            999998766554

>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=98.85  E-value=4.7e-09  Score=85.63  Aligned_cols=74  Identities=11%  Similarity=0.143  Sum_probs=62.1

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCCceeE
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQGHDLQ  544 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g~~l~  544 (634)
                      +|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.. |..|.|+.|+
T Consensus         1 ~l~v-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~-------~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~   71 (75)
T 1iqt_A            1 KIFV-GGLSPDTP-EEKIREYFGGFGEVESIELPMDNK-------TNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCE   71 (75)
T ss_dssp             CEEE-SCCCSSCC-HHHHHHHHHHHSCCSEECCCCSCC-------CSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCC
T ss_pred             CEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEecCC-------CCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEE
Confidence            5889 89999997 999999999999999999875431       111237999999999999999865 7889999999


Q ss_pred             EEEe
Q 048615          545 FTWL  548 (634)
Q Consensus       545 l~W~  548 (634)
                      +.|.
T Consensus        72 v~~a   75 (75)
T 1iqt_A           72 IKVA   75 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9883

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

Probab=98.85  E-value=6.1e-09  Score=94.90  Aligned_cols=86  Identities=12%  Similarity=0.121  Sum_probs=70.1

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeE--EEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cC
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLAS--VELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SG  535 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~s--v~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g  535 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|..  |.+..+..       .....+++||+|.+. +|++|+.  +|
T Consensus        19 ~~~~~~~lfV-~nL~~~~t-e~~L~~~F~~~G~v~~~~v~i~~d~~-------tg~~rG~aFV~f~~~-~a~~Ai~~l~g   88 (131)
T 2m2b_A           19 SENANDTIIL-RNLNPHST-MDSILGALAPYAVLSSSNVRVIKDKQ-------TQLNRGFAFIQLSTI-EAAQLLQILQA   88 (131)
T ss_dssp             CSCCCCEEEE-CSCCTTCC-SHHHHHHHGGGCCCCTTTEECCBCSS-------SSSBCSCEEEECCHH-HHHHHHHHHTT
T ss_pred             CCCCCCEEEE-eCCCCCCC-HHHHHHHHHHhCCcceeeEEEEEcCC-------CCCcceEEEEEECCH-HHHHHHHHhcC
Confidence            4566789999 89999997 8999999999999977  77765431       111237999999999 9999984  69


Q ss_pred             C----ccCCceeEEEEeCCCCCCC
Q 048615          536 K----SWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       536 ~----~~~g~~l~l~W~~~~~~~~  555 (634)
                      .    .|.|+.|++.|..+.....
T Consensus        89 ~~~~~~~~gr~l~V~~a~~~~~~~  112 (131)
T 2m2b_A           89 LHPPLTIDGKTINVEFAKGSKRDM  112 (131)
T ss_dssp             CCCSCCGGGCCCCCEECCCSCCCC
T ss_pred             CCCCccCCCEEEEEEECCCCCCCC
Confidence            8    9999999999998875443

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.84  E-value=1.6e-09  Score=92.03  Aligned_cols=70  Identities=13%  Similarity=0.136  Sum_probs=57.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|..+ .|..+..+.+ .++.++|||||+|.+.++| +||. |||..|.||+|+|.++.++.
T Consensus        18 Lp~~~t~~~l~~~F~~~-~i~~v~i~~~-~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~~~~   88 (91)
T 2dgw_A           18 APFNVTEKNVMEFLAPL-KPVAIRIVRN-AHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREKSGP   88 (91)
T ss_dssp             CCSSCCHHHHHHHHTTS-CCSEEEEEEC-TTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEESSCC
T ss_pred             CCCCCCHHHHHHHHhhC-CceEEEEEEC-CCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECCcCC
Confidence            44456777788888877 6666666666 5567799999999999999 9998 99999999999999987653

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.83  E-value=3.1e-09  Score=92.04  Aligned_cols=70  Identities=10%  Similarity=0.143  Sum_probs=57.9

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|..++.|+++.   ++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.++.
T Consensus        23 Lp~~~t~~~l~~~F~~~~~~~~~~---~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~   93 (102)
T 2fc8_A           23 LSEDTTEETLKESFDGSVRARIVT---DRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPKG   93 (102)
T ss_dssp             CCTTCCHHHHHHTSTTCSEEEEEE---CSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CCCccCHHHHHHHhcCCeEEEEEe---cCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCCC
Confidence            344567788889998887666554   444556799999999999999 9999999999999999999998765

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=98.83  E-value=9.8e-09  Score=90.29  Aligned_cols=74  Identities=20%  Similarity=0.189  Sum_probs=65.2

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc--c
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS--W  538 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~--~  538 (634)
                      ..++|+| ++||.+++ +++|++.|.+||.|.+|.+...+             +.|||.|.+..+|++|+.  +|..  |
T Consensus        20 ps~~l~V-~NLp~~~t-e~~L~~lF~~fG~V~~v~i~~~k-------------g~AFVef~~~~~A~~Av~~ln~~~~~i   84 (100)
T 3r27_A           20 ASPVVHI-RGLIDGVV-EADLVEALQEFGPISYVVVMPKK-------------RQALVEFEDVLGACNAVNYAADNQIYI   84 (100)
T ss_dssp             CCSEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHHHSCEEE
T ss_pred             CCcEEEE-eCCCCCCC-HHHHHHHHhccCCEEEEEEEcCC-------------CEEEEEECCHHHHHHHHHHhcCCCcee
Confidence            4578999 89999997 99999999999999999987655             799999999999999986  3654  7


Q ss_pred             CCceeEEEEeCCC
Q 048615          539 QGHDLQFTWLMPS  551 (634)
Q Consensus       539 ~g~~l~l~W~~~~  551 (634)
                      .|+.|.+.|.+++
T Consensus        85 ~Gr~i~V~~S~~k   97 (100)
T 3r27_A           85 AGHPAFVNYSTSQ   97 (100)
T ss_dssp             TTEEEEEEECSCS
T ss_pred             CCcEEEEEecccc
Confidence            8999999997654

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.83  E-value=1e-08  Score=88.33  Aligned_cols=73  Identities=23%  Similarity=0.240  Sum_probs=61.8

Q ss_pred             CCCEEEEeCCC----CCCCC---HHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVP----LKSNR---REALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp----~d~~t---e~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +..||+|.-.+    ..+.+   ..+|.+.|++||.|..++|+.++  +||+|.+.++|.+|+. |+| .++||.|+|.+
T Consensus         6 pd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~--~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~l   82 (91)
T 2dnr_A            6 SGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK--MWVTFLEGSSALNVLS-LNGKELLNRTITIAL   82 (91)
T ss_dssp             SSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS--EEEEESSHHHHHHGGG-GTTCEETTEEEEEEE
T ss_pred             CCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC--EEEEECChHHHHHHHh-cCCeEeCCeEEEEEe
Confidence            35688887765    22223   26799999999999999999876  8999999999999998 999 89999999999


Q ss_pred             ecCC
Q 048615          247 ANRD  250 (634)
Q Consensus       247 ak~~  250 (634)
                      ++++
T Consensus        83 kt~d   86 (91)
T 2dnr_A           83 KSPS   86 (91)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            9865

>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=98.83  E-value=5.3e-09  Score=99.06  Aligned_cols=83  Identities=16%  Similarity=0.254  Sum_probs=68.0

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.+..+|++|+.  +|..|.|
T Consensus        71 ~~~~l~V-~nLp~~~t-~~~L~~~F~~~G~i~~v~i~~~~~-------~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  141 (165)
T 1rk8_A           71 EGWILFV-TSIHEEAQ-EDEIQEKFCDYGEIKNIHLNLDRR-------TGFSKGYALVEYETHKQALAAKEALNGAEIMG  141 (165)
T ss_dssp             -CEEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TSSEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHhhcCCCEEEEEEEecCC-------CCcEeeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3678999 89999997 999999999999999999875421       01112799999999999999995  6999999


Q ss_pred             ceeEEEEeCCCCCC
Q 048615          541 HDLQFTWLMPSSSS  554 (634)
Q Consensus       541 ~~l~l~W~~~~~~~  554 (634)
                      +.|.+.|..+..+.
T Consensus       142 ~~l~V~~a~~~~~~  155 (165)
T 1rk8_A          142 QTIQVDWCFVKGPK  155 (165)
T ss_dssp             EECEEEESEECC--
T ss_pred             EEEEEEEecCCCCC
Confidence            99999998876653

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

Probab=98.83  E-value=8e-10  Score=92.09  Aligned_cols=60  Identities=13%  Similarity=0.167  Sum_probs=51.6

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCE-EEEEc
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGK-RIIEG  147 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR-~I~V~  147 (634)
                      +++.+..+|.++|.|..+..+  +.++.++|||||+|.+.++| +|+..|||..|.|| +|+|.
T Consensus        20 t~~~l~~~F~~~G~i~~v~i~--~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V~   81 (81)
T 2krb_A           20 LKNVIHKIFSKFGKITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVN   81 (81)
T ss_dssp             HHHHHHHHHHTTCCEEEEECC--CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCCC
T ss_pred             HHHHHHHHHhhcCCeEEEEec--CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEeC
Confidence            567788888888888887766  34567799999999999999 99999999999999 88874

>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=98.83  E-value=1.5e-08  Score=89.50  Aligned_cols=81  Identities=14%  Similarity=0.158  Sum_probs=67.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccce----eEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--c
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDL----ASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--S  534 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei----~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~  534 (634)
                      ....++|+| ++||..++ +++|+++|.+||.|    ..+.+....          + .++|||+|.+..+|++|+.  +
T Consensus        22 ~~~~~~l~V-~nLp~~~t-~~~l~~~f~~~G~v~~~~~~~~~~~g~----------~-~g~afV~f~~~~~a~~Ai~~l~   88 (115)
T 2cpx_A           22 GEPNKVLYL-KNLSPRVT-ERDLVSLFARFQEKKGPPIQFRMMTGR----------M-RGQAFITFPNKEIAWQALHLVN   88 (115)
T ss_dssp             CSCCSEEEE-ECCCTTCC-HHHHHHHTHHHHHSSSSCCEEEEECSS----------S-CSEEEEECSSHHHHHHHHHHST
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHHhCCccceEEEEEcCCCc----------c-ceEEEEEECCHHHHHHHHHHhC
Confidence            345689999 89999997 99999999999999    455544222          1 2799999999999999995  6


Q ss_pred             CCccCCceeEEEEeCCCCCC
Q 048615          535 GKSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       535 g~~~~g~~l~l~W~~~~~~~  554 (634)
                      |..|.|+.|++.|..+....
T Consensus        89 g~~~~g~~l~v~~a~~~~~~  108 (115)
T 2cpx_A           89 GYKLYGKILVIEFGKNKKQR  108 (115)
T ss_dssp             TCBCSSCBCEEEECCCCSCC
T ss_pred             CCEeCCcEEEEEEccCCCCC
Confidence            99999999999999887654

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

Probab=98.83  E-value=8.1e-09  Score=90.49  Aligned_cols=81  Identities=12%  Similarity=0.201  Sum_probs=66.5

Q ss_pred             CCCcceEEEcCCCCCCCCC-----HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--
Q 048615          461 DNRPTAFRIMPPLPVGFAD-----VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--  533 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~-----~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--  533 (634)
                      +.-.++|+| ++||..+.+     +++|+++|.+||+|.+|.+....        ..+ .++|||+|.+..+|++|+.  
T Consensus        12 ~~~~~~l~V-~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~--------g~~-~G~afV~f~~~~~A~~Ai~~l   81 (105)
T 2nlw_A           12 DGIDSVIVV-DNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEED--------GKT-KGYIFLEYASPAHAVDAVKNA   81 (105)
T ss_dssp             CSCCSEEEE-ESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBT--------TBS-CCEEEEEECSSSHHHHHHHHC
T ss_pred             CCCCCEEEE-eCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCC--------CCe-eeEEEEEECCHHHHHHHHHHh
Confidence            344789999 899998842     68999999999999999987321        012 2799999999999999996  


Q ss_pred             cCCccCCc-eeEEEEeCCC
Q 048615          534 SGKSWQGH-DLQFTWLMPS  551 (634)
Q Consensus       534 ~g~~~~g~-~l~l~W~~~~  551 (634)
                      +|..|.|+ .|++.|....
T Consensus        82 ~g~~~~g~~~l~V~~a~~~  100 (105)
T 2nlw_A           82 DGYKLDKQHTFRVNLFTDF  100 (105)
T ss_dssp             SSEECSTTCEEEEECSCCC
T ss_pred             CCcccCCCceEEEEEcchH
Confidence            69999997 9999997643

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=98.82  E-value=3.2e-09  Score=92.08  Aligned_cols=83  Identities=14%  Similarity=0.224  Sum_probs=69.6

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCccCC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQG  540 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~~g  540 (634)
                      +..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        ....++|||+|.+..+|++|+.+|..|.|
T Consensus         6 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~i~~v~i~~~~~--------g~~~g~afV~f~~~~~a~~Ai~~~~~~~g   75 (102)
T 2xs2_A            6 KIMPNTVFV-GGIDVRMD-ETEIRSFFARYGSVKEVKIITDRT--------GVSKGYGFVSFYNDVDVQKIVESQINFHG   75 (102)
T ss_dssp             EEEEEEEEE-ECCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT--------SCEEEEEEEEESSCCCHHHHTTCCCEETT
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHhCCCeEEEEEEECCC--------CCccceEEEEECCHHHHHHHHhCCCeECC
Confidence            345689999 89999997 999999999999999999875420        11127999999999999999998889999


Q ss_pred             ceeEEEEeCCCCC
Q 048615          541 HDLQFTWLMPSSS  553 (634)
Q Consensus       541 ~~l~l~W~~~~~~  553 (634)
                      +.|.+.|..+...
T Consensus        76 ~~l~v~~a~~~~~   88 (102)
T 2xs2_A           76 KKLKLGPAIRKQN   88 (102)
T ss_dssp             EECEEEEEEECC-
T ss_pred             EEEEEEECCcCcc
Confidence            9999999886654

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.81  E-value=9.1e-09  Score=88.05  Aligned_cols=81  Identities=19%  Similarity=0.245  Sum_probs=67.6

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      .-+...++|+| ++||..++ +++|+++|.+||+|..| .....          + .++|||+|.+..+|++|+.  +|.
T Consensus        11 ~~~~~~~~l~V-~nL~~~~t-~~~l~~~F~~~g~v~~~-~~~~~----------~-~g~afV~f~~~~~a~~A~~~l~g~   76 (96)
T 1fjc_A           11 KKVRAARTLLA-KNLSFNIT-EDELKEVFEDALEIRLV-SQDGK----------S-KGIAYIEFKSEADAEKNLEEKQGA   76 (96)
T ss_dssp             STTTGGGEEEE-ESCCSSCC-HHHHHHHHCSEEEECCE-EETTE----------E-EEEEEEEESSHHHHHHHHHHTTEE
T ss_pred             ccCCCCCEEEE-eCCCCCCC-HHHHHHHHhhCCcEEEe-CCCCC----------c-ceEEEEEECCHHHHHHHHHHhCCC
Confidence            34566899999 89999997 99999999999999888 22111          1 2699999999999999996  699


Q ss_pred             ccCCceeEEEEeCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~  553 (634)
                      .|.|+.|++.|..+...
T Consensus        77 ~~~g~~l~v~~a~~~~~   93 (96)
T 1fjc_A           77 EIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             EETTEEEEEEECSSSCC
T ss_pred             EECCeEEEEEEcCCCCC
Confidence            99999999999877654

>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=98.81  E-value=6.2e-09  Score=88.13  Aligned_cols=74  Identities=16%  Similarity=0.234  Sum_probs=65.3

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||..++ +++|+++|.+| +|.+|.+....             +++||+|.++.+|++|+.  +|..|.|
T Consensus         4 ~~~~l~V-~nLp~~~t-~~~l~~~F~~~-~v~~~~i~~~~-------------g~afV~f~~~~~a~~Ai~~l~g~~~~g   67 (88)
T 1wg1_A            4 GSSGILV-KNLPQDSN-CQEVHDLLKDY-DLKYCYVDRNK-------------RTAFVTLLNGEQAQNAIQMFHQYSFRG   67 (88)
T ss_dssp             CCCCEEE-ESCCSSCC-HHHHHHHTCSS-CCCCEEEEGGG-------------TEEEECCSCHHHHHHHHHHHTTEEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHhhC-CeEEEEEeCCC-------------cEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            4688999 89999997 99999999999 99999985332             799999999999999985  6999999


Q ss_pred             ceeEEEEeCCCC
Q 048615          541 HDLQFTWLMPSS  552 (634)
Q Consensus       541 ~~l~l~W~~~~~  552 (634)
                      +.|++.|.+...
T Consensus        68 ~~l~V~~a~~~~   79 (88)
T 1wg1_A           68 KDLIVQLQPTDA   79 (88)
T ss_dssp             EEEEEEECCCCC
T ss_pred             cEEEEEEcCCCc
Confidence            999999976544

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

Probab=98.80  E-value=1.3e-08  Score=93.03  Aligned_cols=77  Identities=19%  Similarity=0.241  Sum_probs=64.0

Q ss_pred             cceEEEcCCCCCCCCCHHHH----HHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVL----KEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L----~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .++|+| ++||..++ +++|    +++|.+||+|.+|.+....         .+ .++|||+|.++.+|++|+.  +|..
T Consensus        29 ~~~LfV-~nL~~~~~-e~~L~~~L~~~F~~~G~I~~v~i~~~~---------~~-rG~aFV~F~~~~~A~~Ai~~lng~~   96 (127)
T 2a3j_A           29 SQVVLI-TNINPEVP-KEKLQALLYALASSQGDILDIVVDLSD---------DN-SGKAYIVFATQESAQAFVEAFQGYP   96 (127)
T ss_dssp             CSEEEE-ESCCTTSC-HHHHHHHHHHHHHHHSCEEEEEECCCC---------SS-CCCEEEEESSHHHHHHHHHHSTTCC
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHHHhccCCCeEEEEeccCC---------Cc-CCEEEEEECCHHHHHHHHHHHCCCE
Confidence            468999 89999997 6655    4799999999999885321         12 2799999999999999985  6999


Q ss_pred             cCCceeEEEEeCCCC
Q 048615          538 WQGHDLQFTWLMPSS  552 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~  552 (634)
                      |.|+.|++.|..+..
T Consensus        97 l~gr~l~V~~a~~~~  111 (127)
T 2a3j_A           97 FQGNPLVITFSETPQ  111 (127)
T ss_dssp             CTTSCCEEEECCCCC
T ss_pred             eCCCEEEEEEccCcc
Confidence            999999999987654

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.79  E-value=7e-10  Score=96.11  Aligned_cols=69  Identities=19%  Similarity=0.159  Sum_probs=58.1

Q ss_pred             ccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           83 AAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        83 ~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ...+++.+..+|.++|.|.. ..+.++.++.++|||||+|.+.++| +||. |||..|.|++|+|.++.++.
T Consensus        27 ~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~~~   96 (101)
T 1fj7_A           27 PNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKGRD   96 (101)
T ss_dssp             TTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSCCC
T ss_pred             CCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCCCC
Confidence            34577788888888888776 4566666667799999999999999 9998 99999999999999998654

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

Probab=98.28  E-value=5.9e-10  Score=99.27  Aligned_cols=73  Identities=14%  Similarity=0.108  Sum_probs=62.9

Q ss_pred             CCccccccccccceeeecceee--------eeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKN--------RSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~--------~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +....+++.+..+|.++|.|..        +..+.++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.+
T Consensus        15 Lp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   94 (116)
T 2lcw_A           15 LGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFATR   94 (116)
Confidence            3345677888899999998877        66777776677899999999999999 99999999999999999999987


Q ss_pred             cC
Q 048615          152 KN  153 (634)
Q Consensus       152 k~  153 (634)
                      +.
T Consensus        95 ~~   96 (116)
T 2lcw_A           95 RA   96 (116)
Confidence            65

>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=98.79  E-value=7.4e-10  Score=99.97  Aligned_cols=72  Identities=10%  Similarity=0.090  Sum_probs=59.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|..+|.|..+..+..+.++.++|||||+|.+.++| +||. |||..|+||+|+|.++..+.
T Consensus        33 Lp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~~~  105 (124)
T 1wel_A           33 LPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITKKG  105 (124)
T ss_dssp             CCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECHHH
T ss_pred             CCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECCHHH
Confidence            344567788888888888876655555566677899999999999999 9998 99999999999999887543

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=98.77  E-value=4.6e-09  Score=92.90  Aligned_cols=67  Identities=15%  Similarity=0.020  Sum_probs=55.5

Q ss_pred             ccccccccceeeecceeeeecccccc-CCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           85 VSQNTSMSVWGRIGSSKNRSNVKEKI-DATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        85 ~s~~~~~svfg~Ig~V~~~~~~k~k~-~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      ..++.++..|+++|.|..+.+++++. ++.++|||||+|.+.++| +|+..|||+.+.||+|+|.++..
T Consensus        25 d~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~a~~   93 (105)
T 2pe8_A           25 DLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNL   93 (105)
T ss_dssp             -CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             HHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcCH
Confidence            35667777888888877777776543 346799999999999999 99999999999999999998864

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.77  E-value=2.5e-08  Score=87.52  Aligned_cols=66  Identities=23%  Similarity=0.389  Sum_probs=56.9

Q ss_pred             CCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCccCCceeEEEEeCCCCCC
Q 048615          476 GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       476 ~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~~g~~l~l~W~~~~~~~  554 (634)
                      +++ +++|+++|.+||+|..|.+....            .++|||+|.++.+|++|+..+..+.|+.|++.|..+....
T Consensus        28 ~~t-e~~L~~~F~~~G~V~~v~i~~~~------------rGfaFVeF~~~~~A~~Ai~~~~~~~g~~l~V~~a~~~~~~   93 (100)
T 2d9o_A           28 GYS-KDVLLRLLQKYGEVLNLVLSSKK------------PGTAVVEFATVKAAELAVQNEVGLVDNPLKISWLEGQPQD   93 (100)
T ss_dssp             SCC-HHHHHHHHHTTSCEEEEEEESSS------------SSEEEEEESCHHHHHHHHHTCCBCSSSBCEEECSSCCCCC
T ss_pred             CCC-HHHHHHHHHhcCCEEEEEEccCC------------CCEEEEEECCHHHHHHHHHhcCCCCCCeEEEEEccCCCCC
Confidence            344 89999999999999999987321            2799999999999999999888888999999998877654

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.76  E-value=2.3e-09  Score=96.22  Aligned_cols=71  Identities=10%  Similarity=-0.037  Sum_probs=56.4

Q ss_pred             CCccccccccccceeeecc---eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGS---SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~---V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|..+|.   |..++++.++. +.++|||||+|.+.++| +||. |||..|+||+|+|.++..+.
T Consensus        25 Lp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~~~   99 (118)
T 2db1_A           25 LPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-GRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKSHRTE   99 (118)
T ss_dssp             CCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-SCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEECHHH
T ss_pred             CCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEECCHHH
Confidence            3445677777777776665   56666666655 67799999999999999 9997 99999999999999886543

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.76  E-value=4e-09  Score=93.95  Aligned_cols=73  Identities=12%  Similarity=0.097  Sum_probs=58.8

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      .|+| +....+++.+..+|..+ .|..+.++.++. +.++|||||+|.+.++| +|| .|||..|+||.|+|..+..+
T Consensus        20 ~V~n-Lp~~~te~dl~~~F~~~-~v~~v~i~~d~~-g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~~   93 (109)
T 2dnn_A           20 SVHG-MPFSAMENDVRDFFHGL-RVDAVHLLKDHV-GRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATER   93 (109)
T ss_dssp             EEEC-CCSSCCHHHHHHHTTTS-CCCEEEECCCTT-CCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCHH
T ss_pred             EEeC-CCCCCCHHHHHHHhccC-CeeEEEEEECCC-CCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCcc
Confidence            3444 44567788888888888 666666676665 67899999999999999 999 79999999999999887653

>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=98.75  E-value=3.2e-08  Score=86.65  Aligned_cols=83  Identities=17%  Similarity=0.164  Sum_probs=66.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      ....++|+| ++||..++ +++|++||.+||. .+|.+.-+..        -....++||+|.+..+|++|+. ++..|.
T Consensus        12 ~~~~~~l~V-~nLp~~~t-e~~l~~~F~~~G~-~~v~i~~d~~--------g~~~G~afV~F~~~~~a~~Al~~~~~~~~   80 (102)
T 1wez_A           12 STTGHCVHM-RGLPYRAT-ENDIYNFFSPLNP-MRVHIEIGPD--------GRVTGEADVEFATHEDAVAAMAKDKANMQ   80 (102)
T ss_dssp             CSSSCEEEE-ESCCTTCC-HHHHHHSSCSCCC-SEEEEEESSS--------SCEEEEEEEECSSSHHHHHHHTTSSCCSS
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHHcCc-eEEEEEECCC--------CCEeeEEEEEECCHHHHHHHHHhCCCeEC
Confidence            344689999 89999997 9999999999994 4888764321        1112689999999999999984 488999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|++.|..+...+
T Consensus        81 gr~i~V~~~~~~~~~   95 (102)
T 1wez_A           81 HRYVELFLNSTAGTS   95 (102)
T ss_dssp             SSCCEEEEECCCCCC
T ss_pred             CcEEEEEECCCCCCC
Confidence            999999998776654

>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=98.75  E-value=2.2e-08  Score=95.66  Aligned_cols=79  Identities=18%  Similarity=0.215  Sum_probs=67.9

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +++..+|+| ++|+..++ +++|++.|.+||+|.+|.+....           ...++||+|.++.+|++|+.  +|..|
T Consensus        43 ps~vl~l~V-gNL~~~vt-ed~L~~~Fs~fG~V~~V~i~~k~-----------~rgfAFVeF~d~~~A~~Ai~~LnG~~i  109 (164)
T 1sjr_A           43 QSPVLRIIV-ENLFYPVT-LDVLHQIFSKFGTVLKIITFTKN-----------NQFQALLQYADPVSAQHAKLSLDGQNI  109 (164)
T ss_dssp             CCCEEEEEE-CSCCSCCC-HHHHHHHHHHHSCEEEEEEEESS-----------SCEEEEEEESCHHHHHHHHHHSTTBCS
T ss_pred             CCceEEEEE-eCcCCCCC-HHHHHHHHHhcCCEEEEEEEeCC-----------CCCEEEEEECCHHHHHHHHHHhCCCEe
Confidence            567788999 89999997 99999999999999999985432           01589999999999999996  59999


Q ss_pred             CC--ceeEEEEeCCCC
Q 048615          539 QG--HDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g--~~l~l~W~~~~~  552 (634)
                      .|  +.|+|.|.++..
T Consensus       110 ~g~g~~L~V~~Ak~~~  125 (164)
T 1sjr_A          110 YNACCTLRIDFSKLTS  125 (164)
T ss_dssp             SSSCSCEEEEECSSSS
T ss_pred             cCCCcEEEEEEecCCc
Confidence            54  999999998764

>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=98.73  E-value=2e-08  Score=84.04  Aligned_cols=72  Identities=15%  Similarity=0.346  Sum_probs=63.9

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcc----c-------ceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHH
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSY----G-------DLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAE  529 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~f----G-------ei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE  529 (634)
                      +...++|+| ++||..++ +++|+++|.+|    |       +|.+|.+....             ++|||+|.+..+|+
T Consensus         3 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~k-------------g~afV~f~~~~~a~   67 (87)
T 2hzc_A            3 LGSARRLYV-GNIPFGIT-EEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK-------------NFAFLEFRSVDETT   67 (87)
T ss_dssp             SGGGGEEEE-ESCCTTCC-HHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSS-------------SEEEEEESSHHHHH
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHHHhhhcccccCCCCcceEEEecCCC-------------cEEEEEcCCHHHHH
Confidence            345789999 89999997 99999999999    8       99999988665             79999999999999


Q ss_pred             HHH-HcCCccCCceeEEEE
Q 048615          530 RAF-LSGKSWQGHDLQFTW  547 (634)
Q Consensus       530 ~A~-~~g~~~~g~~l~l~W  547 (634)
                      +|+ ++|..|.|+.|++.+
T Consensus        68 ~A~~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           68 QAMAFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             HHGGGTTCEETTEECEEEC
T ss_pred             HHHhcCCCEECCeEEEEeC
Confidence            998 249999999999874

>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=98.73  E-value=2.3e-09  Score=99.24  Aligned_cols=70  Identities=9%  Similarity=-0.047  Sum_probs=57.6

Q ss_pred             CCccccccccccceeeecc---eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGS---SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~---V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +....+++++..+|..+|.   |..+.++.++. +.++|||||+|.+.++| +||. |||..|+||+|+|.++..+
T Consensus        52 Lp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~-g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a~~~  125 (136)
T 2hgl_A           52 LPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-GRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKSHRT  125 (136)
T ss_dssp             CCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-SCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEECCHH
T ss_pred             CCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEECChH
Confidence            4556677888888887776   55666666665 67899999999999999 9998 9999999999999988654

>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=98.73  E-value=2.6e-08  Score=88.83  Aligned_cols=76  Identities=17%  Similarity=0.233  Sum_probs=61.8

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~  539 (634)
                      ...++|+| ++||..++ +++|+++|.+||+|.+|.+..+              +++||+|.+..+|++|+.  +|..|.
T Consensus        14 r~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~v~~~~i~~~--------------g~afV~f~~~~~a~~Ai~~l~g~~~~   77 (115)
T 3beg_B           14 RSENRVVV-SGLPPSGS-WQDLKDHMREAGDVCYADVYRD--------------GTGVVEFVRKEDMTYAVRKLDNTKFR   77 (115)
T ss_dssp             ---CCEEE-EECCSSCC-TTHHHHHHGGGSCEEEEEECTT--------------SEEEEEESSHHHHHHHHHHHTTCBCC
T ss_pred             CCCcEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEecC--------------CEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34689999 89999997 8999999999999999998643              589999999999999995  699999


Q ss_pred             Cce-----eEEEEeCCCCC
Q 048615          540 GHD-----LQFTWLMPSSS  553 (634)
Q Consensus       540 g~~-----l~l~W~~~~~~  553 (634)
                      |+.     +++.+-.+..+
T Consensus        78 gr~~~~~~i~v~~~~~~~~   96 (115)
T 3beg_B           78 SHEGETAYIRVKVDGPRSP   96 (115)
T ss_dssp             CTTSCCCBCEEEECC----
T ss_pred             CcEeeeEEEEeccCCCCCC
Confidence            988     77777665544

>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=98.72  E-value=1.9e-09  Score=94.87  Aligned_cols=71  Identities=8%  Similarity=0.043  Sum_probs=57.2

Q ss_pred             CCccccccccccceeeecc---eeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGS---SKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~---V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|..+|.   |..+.++.++. +.++|||||+|.+.++| +||. |||..|+||.|+|.++.++.
T Consensus        19 Lp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a~~~~   93 (107)
T 2lmi_A           19 LPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-GKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEINNED   93 (107)
T ss_dssp             CCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-STTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEECCHHH
T ss_pred             CCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-CCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEECCHHH
Confidence            3445677777777777665   66666676666 67899999999999999 9998 99999999999999887543

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

Probab=98.72  E-value=3.6e-08  Score=89.55  Aligned_cols=74  Identities=19%  Similarity=0.118  Sum_probs=66.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCC-HHHHHHHHHcCC--C-ccCCeEEEEEee
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSK-REEAEAALKSPD--A-VMGNRFIKLWWA  247 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s-~e~A~~Ai~~ln--g-~l~gR~IkV~wa  247 (634)
                      +.++.|||+||+++.++.++|+++|++||.|..|.+.++...|||.|.+ ..+|..|+..++  + .|.|..+++...
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL   93 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   93 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEEC
Confidence            4479999999999328999999999999999999999999999999999 899999999985  3 789988887654

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

Probab=98.72  E-value=3.5e-08  Score=95.09  Aligned_cols=80  Identities=19%  Similarity=0.300  Sum_probs=68.1

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       ..++ ++|||+|.++.+|++|+.  +|..|.|
T Consensus        87 ~~~~l~V-~nLp~~~t-e~~L~~~F~~~G~I~~v~i~~d~~-------g~~k-G~afV~F~~~~~A~~Ai~~lng~~l~G  156 (177)
T 2f3j_A           87 TGAKLLV-SNLDFGVS-DADIQELFAEFGTLKKAAVDYDRS-------GRSL-GTADVHFERRADALKAMKQYKGVPLDG  156 (177)
T ss_dssp             TCEEEEE-ECCCSCCC-HHHHHHHHHHTSCCSEEEECCCTT-------SSCS-CCEEEEESCHHHHHHHHHHSTTCBCSS
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhcCCeEEEEEEECCC-------CCEe-eEEEEEeCCHHHHHHHHHHhCCCEECC
Confidence            3689999 89999997 999999999999999999875431       1122 789999999999999996  6999999


Q ss_pred             ceeEEEEeCCCC
Q 048615          541 HDLQFTWLMPSS  552 (634)
Q Consensus       541 ~~l~l~W~~~~~  552 (634)
                      +.|+|.|..+..
T Consensus       157 r~l~V~~a~~~~  168 (177)
T 2f3j_A          157 RPMDIQLVASQI  168 (177)
T ss_dssp             SBCEEEEESSGG
T ss_pred             EEEEEEEecCCC
Confidence            999999987653

>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=98.69  E-value=2.2e-08  Score=100.35  Aligned_cols=85  Identities=18%  Similarity=0.177  Sum_probs=66.6

Q ss_pred             cccCCCcceEEEcCCCCCCCCCHHHHHHHhhccc--ceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--
Q 048615          458 YKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYG--DLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--  533 (634)
Q Consensus       458 ~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fG--ei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--  533 (634)
                      +..+.+.++|+| ++||..++ +++|+++|.+||  +|.+|.|..+..      .-.++ +++||+|.+..+|++|+.  
T Consensus        62 ~~~~~~~~~lfV-gnL~~~~t-e~~L~~~F~~~G~~~v~~v~i~~d~~------tg~sk-GfaFV~f~~~~~a~~Ai~~l  132 (229)
T 3q2s_C           62 YTYTGKRIALYI-GNLTWWTT-DEDLTEAVHSLGVNDILEIKFFENRA------NGQSK-GFALVGVGSEASSKKLMDLL  132 (229)
T ss_dssp             -------CEEEE-ESCCTTCC-HHHHHHHHHTTTCCCEEEEEEEECTT------TCCEE-EEEEEEESCTTHHHHHHTTS
T ss_pred             ccCCCCccEEEE-eCCCCCCC-HHHHHHHHHHHCCcceEEEEEEecCC------CCccc-eEEEEEECCHHHHHHHHHHc
Confidence            445668899999 89999997 999999999999  999999865431      01122 699999999999999995  


Q ss_pred             cCCccCCceeEEEEeCCC
Q 048615          534 SGKSWQGHDLQFTWLMPS  551 (634)
Q Consensus       534 ~g~~~~g~~l~l~W~~~~  551 (634)
                      +|..|.|+.|+|.|..+.
T Consensus       133 ng~~~~Gr~l~V~~a~~~  150 (229)
T 3q2s_C          133 PKRELHGQNPVVTPVNKQ  150 (229)
T ss_dssp             TTSCBTTBCCEEEECCHH
T ss_pred             CCCeECCEEeEEEECCCC
Confidence            699999999999998654

>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=98.68  E-value=6.2e-09  Score=91.79  Aligned_cols=61  Identities=15%  Similarity=0.156  Sum_probs=49.9

Q ss_pred             cccccce-eeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           88 NTSMSVW-GRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        88 ~~~~svf-g~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      +.++..| +++|.|..+.+++++. +.++|||||+|.+.++| +|+..|||+.+.||+|+|.++
T Consensus        41 edl~~~f~~~~G~V~~v~i~~~~~-~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           41 EEVFTEMEEKYGEVEEMNVCDNLG-DHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHTCCEEEEEECCSSS-SSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             HHHHHHhhccCCceEEEEEEeCCC-CCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEc
Confidence            3344455 7777777776666554 46799999999999999 999999999999999999875

>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=98.67  E-value=1.5e-08  Score=89.53  Aligned_cols=66  Identities=11%  Similarity=-0.009  Sum_probs=55.8

Q ss_pred             cccccccceeeecceeeeeccccccC--CCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKID--ATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~--~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      ..++++..|+++|.|..+.+++++.+  ..++|||||+|.+.++| +|+..|||+.+.||+|+|.+...
T Consensus        28 ~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           28 IVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDP   96 (105)
T ss_dssp             HHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEeCH
Confidence            45668888888888888888776643  24689999999999999 99999999999999999997653

>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=98.65  E-value=2e-08  Score=109.94  Aligned_cols=79  Identities=16%  Similarity=0.163  Sum_probs=67.2

Q ss_pred             CcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           74 DLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        74 ~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      .++|.| +....++..+..+|..+|.|..+.++.++.++.++|||||+|.+.++| .||..|||..|.|++|.|.++.++
T Consensus       104 ~lfV~n-L~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~~  182 (437)
T 3pgw_S          104 TLFVAR-VNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGR  182 (437)
T ss_pred             EEEEeC-CCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCCC
Confidence            334444 445567888889999999988888888887788899999999999999 999999999999999999999765


Q ss_pred             C
Q 048615          153 N  153 (634)
Q Consensus       153 ~  153 (634)
                      .
T Consensus       183 ~  183 (437)
T 3pgw_S          183 T  183 (437)
T ss_pred             C
Confidence            4

>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=98.64  E-value=2.9e-08  Score=91.47  Aligned_cols=82  Identities=16%  Similarity=0.180  Sum_probs=65.7

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEE--------EecCCccccCCCCCCCCCCceEEEEecChHHHHHHH
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASV--------ELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF  532 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv--------~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~  532 (634)
                      ....++|+| ++||..++ +++|+++|.+||+|.+|        .+....         .+ .++|||+|.+..+|++|+
T Consensus        42 ~~~~~~l~V-~nLp~~~t-e~~L~~~F~~~G~i~~~~~~~~~di~~~~~g---------~~-~g~afV~f~~~~~A~~Ai  109 (143)
T 3egn_A           42 GEPNCRIYV-KNLAKHVQ-EKDLKYIFGRYVDFSSETQRIMFDIRLMKEG---------RM-KGQAFIGLPNEKAAAKAL  109 (143)
T ss_dssp             CSCCSEEEE-EEECTTCC-HHHHHHHHGGGCCTTCHHHHHHCEEEEEEET---------TT-EEEEEEECSSHHHHHHHH
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHHhCCcccccccceeeEEeccCC---------Cc-ccEEEEEeCCHHHHHHHH
Confidence            344688999 89999997 99999999999999874        222111         11 279999999999999998


Q ss_pred             H--cCCccCCceeEEEEeCCCCCC
Q 048615          533 L--SGKSWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       533 ~--~g~~~~g~~l~l~W~~~~~~~  554 (634)
                      .  +|..|.|+.|.+.|..+..+.
T Consensus       110 ~~lng~~~~g~~l~V~~a~~~~~~  133 (143)
T 3egn_A          110 KEANGYVLFGKPMVVQFARSARPK  133 (143)
T ss_dssp             HHHTTBEETTEECEEEECCCSCC-
T ss_pred             HHhCCCEeCCcEEEEEECCCCCCc
Confidence            5  699999999999998776543

>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=98.62  E-value=7.4e-09  Score=96.24  Aligned_cols=75  Identities=11%  Similarity=-0.007  Sum_probs=62.2

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....+++++..+|..+| +..+.++.++. +.++|||||+|.+.++| +|| .||+..|.||.|+|..+....
T Consensus        49 lfV~n-Lp~~~te~dL~~~F~~~G-i~~v~i~~d~~-g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~~  124 (139)
T 2hgn_A           49 VHMRG-LPYKATENDIYNFFSPLN-PVRVHIEIGPD-GRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTTG  124 (139)
T ss_dssp             EECCS-CCTTCCHHHHHHHHCSCC-CSEEECCCSSS-SCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCSC
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhcC-CeEEEEEECCC-CCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCCC
Confidence            34444 556778889999999999 55677777765 68899999999999999 999 899999999999999887654

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.61  E-value=1.1e-07  Score=86.65  Aligned_cols=76  Identities=18%  Similarity=0.210  Sum_probs=64.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCc-eEEEEecChHHHHHHHH--cCCcc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNC-QVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~-~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      ++...|+| ++|+..++ +++|+++|.+||+|.+|.+....             + .|||+|.+..+|++|+.  +|..|
T Consensus        23 s~vl~l~V-~NL~~~vt-~~~L~~~Fs~yG~V~~v~i~~~~-------------Gf~aFVef~~~~~A~~A~~~LnG~~i   87 (124)
T 2e5i_A           23 NKVLLLSI-QNPLYPIT-VDVLYTVCNPVGKVQRIVIFKRN-------------GIQAMVEFESVLCAQKAKAALNGADI   87 (124)
T ss_dssp             CSEEEEEE-ESCCSCCC-HHHHHHHHTTTSCEEEEEEEESS-------------SEEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CcEEEEEE-cCcCCCCC-HHHHHHHHHhcCCEEEEEEEeCC-------------CCEEEEEECCHHHHHHHHHHhCCCEe
Confidence            34455678 89999997 99999999999999999986421             5 59999999999999985  69999


Q ss_pred             CC--ceeEEEEeCCCC
Q 048615          539 QG--HDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g--~~l~l~W~~~~~  552 (634)
                      .|  +.|+|.|.++..
T Consensus        88 ~g~~~~l~V~~Ak~~~  103 (124)
T 2e5i_A           88 YAGCCTLKIEYARPTR  103 (124)
T ss_dssp             BTTBSEEEEECCSCSC
T ss_pred             cCCCeEEEEEEecCCc
Confidence            76  699999988775

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.60  E-value=9.1e-09  Score=94.39  Aligned_cols=69  Identities=10%  Similarity=0.066  Sum_probs=56.4

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCC----HHH----H-HHHh--ccCCceeCCEEEEEccCc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENET----KED----R-EALP--SLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~----~e~----A-~Ai~--~mnG~~l~GR~I~V~~a~  150 (634)
                      ++..++..++.+|..+|+|..+..+.++.++.++|||||+|.+    .++    | +|+.  .|||..|+||+|+|..-.
T Consensus        15 ~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           15 TTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             CCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEEECC
T ss_pred             CCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEEECc
Confidence            4566777788888888888888888888888999999999995    322    6 8998  899999999999998654

>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=98.60  E-value=7.2e-08  Score=94.05  Aligned_cols=79  Identities=15%  Similarity=0.233  Sum_probs=66.4

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQG  540 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g  540 (634)
                      ...++|+| ++||..++ +++|++||.+||+|.+|.+.....        ....++|||+|.+..+|++|+.. +..|.|
T Consensus       107 ~~~~~l~V-~nLp~~~t-~~~L~~~F~~~G~v~~v~i~~~~~--------~~~kG~aFVeF~~~e~A~~A~~~~~~~~~G  176 (193)
T 2voo_A          107 VKNRSVYI-KGFPTDAT-LDDIKEWLEDKGQVLNIQMRRTLH--------KAFKGSIFVVFDSIESAKKFVETPGQKYKE  176 (193)
T ss_dssp             HHHTEEEE-ECCCTTCC-HHHHHHHHTTSCCEEEEEEEECTT--------CCEEEEEEEEESSHHHHHHHHHCTTCEETT
T ss_pred             cccCEEEe-cCCCCcCC-HHHHHHHHhcCCCEEEEEEEECCC--------CCcccEEEEEECCHHHHHHHHHhCCCeECC
Confidence            34689999 89999987 999999999999999999875431        11137999999999999999975 778999


Q ss_pred             ceeEEEEeCC
Q 048615          541 HDLQFTWLMP  550 (634)
Q Consensus       541 ~~l~l~W~~~  550 (634)
                      +.|.+.|...
T Consensus       177 r~l~V~~~~~  186 (193)
T 2voo_A          177 TDLLILFKDD  186 (193)
T ss_dssp             EECEEEETTT
T ss_pred             EEEEEEEhHH
Confidence            9999999654

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.59  E-value=9.9e-08  Score=87.75  Aligned_cols=79  Identities=18%  Similarity=0.215  Sum_probs=67.5

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      -++...|+| ++|+..++ +++|++.|.+||+|.+|.+....           +...|||.|.+..+|++|+.  +|..|
T Consensus        25 ps~VL~I~V-~NL~~~vt-e~~L~~lFs~yG~V~~V~i~~~~-----------~gfqAFVef~~~~~A~~Ai~~LnG~~i   91 (130)
T 3zzy_A           25 QSPVLRIIV-ENLFYPVT-LDVLHQIFSKFGTVLKIITFTKN-----------NQFQALLQYADPVSAQHAKLSLDGQNI   91 (130)
T ss_dssp             CCSEEEEEE-ESCCSCCC-HHHHHHHHTTSSCEEEEEEEEET-----------TEEEEEEEESCHHHHHHHHHHHTTCEE
T ss_pred             CCceEEEEE-CCCCCCCC-HHHHHHHHhCcCCEEEEEEEcCC-----------CCcEEEEEECCHHHHHHHHHHcCCCee
Confidence            477788999 89999997 99999999999999999986532           11349999999999999984  69999


Q ss_pred             CC--ceeEEEEeCCCC
Q 048615          539 QG--HDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g--~~l~l~W~~~~~  552 (634)
                      -|  +.|+|.|.++..
T Consensus        92 ~g~~~~LrI~~ak~~~  107 (130)
T 3zzy_A           92 YNACCTLRIDFSKLTS  107 (130)
T ss_dssp             ETTEEEEEEEECSCSS
T ss_pred             cCCCcEEEEEecCCCc
Confidence            77  899999998764

>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=98.57  E-value=2.4e-08  Score=88.56  Aligned_cols=63  Identities=10%  Similarity=0.121  Sum_probs=52.9

Q ss_pred             ccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           87 QNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        87 ~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ++.+..+|.++|.|..+.+ .++.   ++|||||+|.+.++| +|+..|||..|.||+|+|.++.++.
T Consensus        40 e~~l~~~f~~~G~v~~v~i-~~~~---~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~~~~  103 (112)
T 2dit_A           40 REDLRVECSKFGQIRKLLL-FDRH---PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTT  103 (112)
T ss_dssp             HHHHHHHGGGTSCCSEEEE-ETTC---TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCC
T ss_pred             HHHHHHHHHccCCEeEEEE-ecCC---CCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCCCC
Confidence            4677888888888777743 3332   599999999999999 9999999999999999999987654

>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=98.56  E-value=1.6e-07  Score=85.74  Aligned_cols=77  Identities=16%  Similarity=0.179  Sum_probs=63.3

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhccccee--EEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLA--SVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~--sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      +..++|+| ++||..++ +++|+++|.+| .|.  +|.+..+..        -...+++||+|.+..+|++|+.. +..|
T Consensus        40 ~~~~~lfV-gnLp~~~t-e~dL~~~F~~~-~i~~~~v~i~~d~~--------GrsrGfaFV~F~~~e~A~~Al~~~~~~l  108 (126)
T 2hgm_A           40 ANDGFVRL-RGLPFGCT-KEEIVQFFSGL-EIVPNGITLPVDPE--------GKITGEAFVQFASQELAEKALGKHKERI  108 (126)
T ss_dssp             SSCCEEEE-ECCCTTCC-HHHHHHHTTTS-CEEEEEEECCCCSS--------SSSCSEEEEEESSTTHHHHHHTTTTCCB
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHHHhcC-CceeeEEEEEECCC--------CCCceEEEEEECCHHHHHHHHHHCCCEE
Confidence            45678999 89999997 99999999999 677  888875431        11237999999999999999864 7889


Q ss_pred             CCceeEEEEeC
Q 048615          539 QGHDLQFTWLM  549 (634)
Q Consensus       539 ~g~~l~l~W~~  549 (634)
                      .|+.|++.+..
T Consensus       109 ~gR~I~V~~a~  119 (126)
T 2hgm_A          109 GHRYIEVFKSS  119 (126)
T ss_dssp             TTBCCCCEEEC
T ss_pred             CCEEEEEEECC
Confidence            99999988764

>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=98.54  E-value=2e-08  Score=90.79  Aligned_cols=65  Identities=17%  Similarity=0.253  Sum_probs=53.6

Q ss_pred             cccccccceeeecceeeeecccccc----CCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKI----DATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~----~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .+++++..|+++|.|..+.+++++.    ++.++||+||+|.+.++| +|+..|||+++.||+|+|.++.
T Consensus        38 leedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~~~  107 (118)
T 3ue2_A           38 LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  107 (118)
T ss_dssp             HHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             HHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcC
Confidence            3456777778888877777776654    235679999999999999 9999999999999999999764

>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=98.51  E-value=8.5e-08  Score=83.04  Aligned_cols=72  Identities=21%  Similarity=0.242  Sum_probs=60.9

Q ss_pred             CCCCEEEEeCCCCC-----CCC---HHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          174 KALRTLFVNNVPLK-----SNR---REALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       174 ~~~~tLfVgnLp~d-----~~t---e~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      ++..||+|.-++..     +.+   -.+|.+.|++||.|..++++.++  +||+|.+.++|.+||+ |+| .++||.|+|
T Consensus        13 PpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~--~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V   89 (95)
T 1ufw_A           13 PLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ--MLVTFADSHSALSVLD-VDGMKVKGRAVKI   89 (95)
T ss_dssp             CTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE--EEEECSCSHHHHHHHH-GGGSEETTEEEEE
T ss_pred             CCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc--EEEEEcChHHHHHHHh-cCCeeeCCeEEEE
Confidence            34579999887631     223   25689999999999999999987  9999999999999999 999 899999999


Q ss_pred             Eeec
Q 048615          245 WWAN  248 (634)
Q Consensus       245 ~wak  248 (634)
                      .+-.
T Consensus        90 ~~k~   93 (95)
T 1ufw_A           90 SGPS   93 (95)
T ss_dssp             ECCC
T ss_pred             eccC
Confidence            9754

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.48  E-value=1.7e-08  Score=91.89  Aligned_cols=70  Identities=10%  Similarity=-0.016  Sum_probs=54.1

Q ss_pred             CCccccccccccceeeecce----eeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSS----KNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V----~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +....+++++..+|..+|.|    ..+.++.++ ++.++|||||+|.+.++| +||.. |+..|+||.|.|..+..+
T Consensus        31 Lp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~-~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a~~~  105 (123)
T 2dha_A           31 LPFTATAEEVVAFFGQHCPITGGKEGILFVTYP-DGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRSTAA  105 (123)
T ss_dssp             CCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT-TSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEECHH
T ss_pred             CCCCCCHHHHHHHHHhhCCccCCcceEEEEECC-CCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEECCHH
Confidence            44566778888888777643    344445543 567799999999999999 99975 999999999999877654

>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=98.48  E-value=4.6e-08  Score=87.91  Aligned_cols=63  Identities=14%  Similarity=0.119  Sum_probs=52.1

Q ss_pred             ccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           85 VSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        85 ~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      ..+++++..|+++|.|..+.+++..    .+|||||+|.+.++| +|+..|||++|+||+|+|.++..
T Consensus        29 el~edl~~~f~kfG~V~~v~i~~~~----~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~v~~~~~   92 (114)
T 3s6e_A           29 EIKDDVIEECNKHGGVIHIYVDKNS----AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPL   92 (114)
T ss_dssp             HHHHHHHHHHTTTTCCSEEEECTTC----TTCCEEEECSSHHHHHHHHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHHHHHHHhccCCEEEEEEecCC----CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEEcH
Confidence            3455667778888887777665543    389999999999999 99999999999999999998754

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

Probab=98.42  E-value=3.3e-07  Score=81.35  Aligned_cols=65  Identities=14%  Similarity=0.123  Sum_probs=50.1

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS  534 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~  534 (634)
                      .+++|+| ++||..++ +++|+++|.+||+|. +.+......    ...-...++|||+|.+..+|++|+..
T Consensus         7 ~~~~lfV-gnLp~~~t-e~~L~~~F~~~G~i~-~~~~~~~~~----~~~g~~~G~aFV~f~~~~~a~~Ai~~   71 (114)
T 2dnl_A            7 GSRKVFV-GGLPPDID-EDEITASFRRFGPLV-VDWPHKAES----KSYFPPKGYAFLLFQEESSVQALIDA   71 (114)
T ss_dssp             CCCCEEE-ECCCTTCC-HHHHHHHTTTTCCCC-EECTTSSSS----CCCSCTTSEEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEE-cCCCCCCC-HHHHHHHHHhcCCEE-EEEeecCCC----CCCCCcccEEEEEECCHHHHHHHHHh
Confidence            4688999 89999997 999999999999999 665543210    00011237999999999999999863

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.26  E-value=4.2e-06  Score=72.66  Aligned_cols=76  Identities=18%  Similarity=0.223  Sum_probs=63.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHH----HHHHhhcc-cceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--
Q 048615          461 DNRPTAFRIMPPLPVGFADVAV----LKEHFSSY-GDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--  533 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~----L~~hF~~f-Gei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--  533 (634)
                      .+..|.|+| ++||..++ ++.    |++.|.+| |.|.+|.    .             +.|||.|.+..+|++|+.  
T Consensus         6 ~p~~T~lYV-~NL~~~~~-~~~lk~~L~~lF~~yGG~Vl~Vt----g-------------G~AfV~F~~~esA~~A~~~l   66 (96)
T 2diu_A            6 SGCHTLLYV-YNLPANKD-GKSVSNRLRRLSDNCGGKVLSIT----G-------------CSAILRFINQDSAERAQKRM   66 (96)
T ss_dssp             CCSSEEEEE-ESCCTTSC-HHHHHHHHHHHHHTTTCCEEECC----T-------------TCEEEEESSHHHHHHHHHHH
T ss_pred             CCcceEEEE-eCCCCcCC-HHHHHHHHHHHHHHcCCeeEEEe----c-------------CEEEEEECCHHHHHHHHHHh
Confidence            345566999 89999997 666    66999999 5998882    1             689999999999999984  


Q ss_pred             cCCccCCceeEEEEeCCCCCCC
Q 048615          534 SGKSWQGHDLQFTWLMPSSSSN  555 (634)
Q Consensus       534 ~g~~~~g~~l~l~W~~~~~~~~  555 (634)
                      +|..+-|+.+++.|.+....-.
T Consensus        67 ~G~~l~gr~i~v~~A~~~sd~~   88 (96)
T 2diu_A           67 ENEDVFGNRIIVSFTPKNRELC   88 (96)
T ss_dssp             TTCCSSSSCCEEESSCCSCCCC
T ss_pred             cCCccCCceEEEEecCCCccee
Confidence            6999999999999988765543

>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=98.22  E-value=9.6e-07  Score=87.09  Aligned_cols=59  Identities=20%  Similarity=0.233  Sum_probs=53.9

Q ss_pred             CHHHHHHhhccCCCEEEEEEecC----------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          190 RREALLSHFQKFGEVVDIYIPLN----------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       190 te~~L~~~FskfG~I~~v~v~~d----------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .+++|++.|++||.|.+|.|+.+          +|++||+|.+.++|.+|++.|+| .++||.|+|.|..
T Consensus       142 ~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          142 LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             HHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            57889999999999999999732          36999999999999999999999 8999999999984

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.12  E-value=6e-06  Score=73.13  Aligned_cols=69  Identities=10%  Similarity=0.064  Sum_probs=66.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccC-----CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKF-----GEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLW  245 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~Fskf-----G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~  245 (634)
                      .++|-+-|||. .+++..++.+...|     |.|++|.+.+|.+-|+|+|.+...|.+|.-+++| .|.||.|+|-
T Consensus        21 ~rtiaL~~ipD-tvndarIr~lve~~~~i~~g~i~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~g   95 (117)
T 2l9w_A           21 ETLICLFPLSD-KVSPSLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSG   95 (117)
T ss_dssp             TSCEEEECCCT-TCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEE
T ss_pred             CcEEEEecCCC-CCCHHHHHHHHhhhhccCccceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEEEec
Confidence            57999999999 69999999999999     9999999999999999999999999999999999 8999999985

>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=98.10  E-value=1.4e-06  Score=92.39  Aligned_cols=79  Identities=19%  Similarity=0.172  Sum_probs=59.8

Q ss_pred             ccccCCCCCCcccccC-CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeC--
Q 048615           65 LRASDSADNDLPVRNA-GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRR--  140 (634)
Q Consensus        65 ~~~~~~~~~~~~v~n~-~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~--  140 (634)
                      +...+.+.+.+.|+|. ++...+++++..+|+++|.|..+....      +||||||+|.+.++| +||..|||+.+.  
T Consensus        11 v~~~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~------~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~   84 (345)
T 3tht_A           11 IETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP------NKPYSFARYRTTEESKRAYVTLNGKEVVDD   84 (345)
T ss_dssp             CCCCSSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT------TCSEEEEEESSHHHHHHHHHHTTTCEEECT
T ss_pred             ceecCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC------CCCEEEEEECCHHHHHHHHHHhCCCccccc
Confidence            3333444456677775 355689999999999999988775543      389999999999999 999999999882  


Q ss_pred             -CE--EEEEccC
Q 048615          141 -GK--RIIEGDA  149 (634)
Q Consensus       141 -GR--~I~V~~a  149 (634)
                       |+  +|+|.+.
T Consensus        85 ~g~~~~ly~~~~   96 (345)
T 3tht_A           85 LGQKITLYLNFV   96 (345)
T ss_dssp             TSCEEECEEEEC
T ss_pred             cCCceEEEEEEe
Confidence             44  4666654

>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=97.90  E-value=2.4e-06  Score=84.18  Aligned_cols=64  Identities=17%  Similarity=0.268  Sum_probs=50.6

Q ss_pred             ccccccceeeecceeeeecccccc----CCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           87 QNTSMSVWGRIGSSKNRSNVKEKI----DATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        87 ~~~~~svfg~Ig~V~~~~~~k~k~----~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      .+.++..|.++|.|..+.+++...    ++.++||+||+|.+.++| +|+..|||+++.||+|+|.+..
T Consensus       143 ~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          143 EGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             HHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            344566666777776666654333    336789999999999999 9999999999999999998764

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

Probab=97.84  E-value=3.8e-05  Score=69.64  Aligned_cols=68  Identities=10%  Similarity=0.101  Sum_probs=57.1

Q ss_pred             cceEEEcCCCCCC-CCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecC-hHHHHHHHHc----CCc
Q 048615          464 PTAFRIMPPLPVG-FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTT-RRSAERAFLS----GKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~-~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~t-R~~AE~A~~~----g~~  537 (634)
                      ...|+| ++|+.. .+ +++|++.|.+||+|.+|.+..+.             ..+||.|.+ -.+|++|+..    |..
T Consensus        18 G~il~v-~~l~~~~~s-redLke~F~~~G~V~~Vd~~~g~-------------~tgfVrf~~~~~~A~~av~~ln~~~~~   82 (121)
T 1owx_A           18 GCLLKF-SGDLDDQTC-REDLHILFSNHGEIKWIDFVRGA-------------KEGIILFKEKAKEALGKAKDANNGNLQ   82 (121)
T ss_dssp             CCEEEE-EESCCSSCC-HHHHHHHTCSSCCEEEEECCTTC-------------SEEEEEESSCHHHHHHHHHHTTTSCBC
T ss_pred             CeEEEE-ecCCCCcCC-HHHHHHHHHhcCCEEEEEEecCC-------------CEEEEEECCChHHHHHHHHHhhcCCcE
Confidence            456777 788888 65 99999999999999999998876             579999999 7888888764    778


Q ss_pred             cCCceeEEE
Q 048615          538 WQGHDLQFT  546 (634)
Q Consensus       538 ~~g~~l~l~  546 (634)
                      |+|..+++.
T Consensus        83 i~g~~~~~e   91 (121)
T 1owx_A           83 LRNKEVTWE   91 (121)
T ss_dssp             TTSSSEEEE
T ss_pred             EeCcEEEEE
Confidence            888776654

>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=97.79  E-value=3e-05  Score=69.93  Aligned_cols=70  Identities=10%  Similarity=0.172  Sum_probs=53.9

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCC-
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQG-  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g-  540 (634)
                      ..+.|.|-|.-|.   +...+..||.+||+|..+......             ++..|+|.+|.+|+||+.. |..|.| 
T Consensus        23 ~~~wVtVFGFp~~---~~~~VL~~F~~~G~Iv~~~~~~~~-------------NWihI~Y~s~~~A~rAL~kNG~ii~g~   86 (119)
T 1wwh_A           23 DDTWVTVFGFPQA---SASYILLQFAQYGNILKHVMSNTG-------------NWMHIRYQSKLQARKALSKDGRIFGES   86 (119)
T ss_dssp             GGGEEEEECCCGG---GHHHHHHHHHTTSCEEEEEECSSS-------------SEEEEEESSHHHHHHHHTTTTCEETTT
T ss_pred             CCCEEEEECCCHH---HHHHHHHHHHhhCcEEEeccCCCC-------------CeEEEEeCCHHHHHHHHHhCCeEecCC
Confidence            4888999765333   357999999999999999874443             8999999999999999976 666653 


Q ss_pred             ceeEEEEe
Q 048615          541 HDLQFTWL  548 (634)
Q Consensus       541 ~~l~l~W~  548 (634)
                      -.|=+.|.
T Consensus        87 ~mIGV~p~   94 (119)
T 1wwh_A           87 IMIGVKPC   94 (119)
T ss_dssp             EECEEEEC
T ss_pred             EEEEEEEC
Confidence            44445554

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.75  E-value=4.9e-05  Score=65.39  Aligned_cols=57  Identities=23%  Similarity=0.434  Sum_probs=50.5

Q ss_pred             HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH-HcCCccCCceeEEEEeCCC
Q 048615          480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF-LSGKSWQGHDLQFTWLMPS  551 (634)
Q Consensus       480 ~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~-~~g~~~~g~~l~l~W~~~~  551 (634)
                      ..+|.++|.+||+|..|++..+.               +||+|.+..+|-+|+ ++|..+.|++|++.+-++.
T Consensus        29 ~~~L~~~F~~~G~Vi~vr~~~d~---------------~fVtF~d~~sAlaAi~mnG~~v~Gr~LkV~lkt~d   86 (91)
T 2dnr_A           29 IDELLQQFASFGEVILIRFVEDK---------------MWVTFLEGSSALNVLSLNGKELLNRTITIALKSPS   86 (91)
T ss_dssp             HHHHHHHHHTTCCEEEEEECSSS---------------EEEEESSHHHHHHGGGGTTCEETTEEEEEEECCCS
T ss_pred             HHHHHHHHHhCCCeEEEEEecCC---------------EEEEECChHHHHHHHhcCCeEeCCeEEEEEeCCCC
Confidence            47899999999999999998754               899999999999998 4699999999999986654

>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=97.65  E-value=5.5e-05  Score=65.48  Aligned_cols=55  Identities=22%  Similarity=0.373  Sum_probs=49.4

Q ss_pred             HHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCceeEEEEeCC
Q 048615          481 AVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDLQFTWLMP  550 (634)
Q Consensus       481 ~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l~l~W~~~  550 (634)
                      .+|.++|.+||+|..|++..++               ++|+|.+-.+|-+|+. +|..+.|+.|++.|-++
T Consensus        39 ~~L~~~F~~~G~Vilvr~v~d~---------------~fVtF~d~~sAl~AI~ldG~~v~Gr~L~V~~k~~   94 (95)
T 1ufw_A           39 TELMQTLGSYGTIVLVRINQGQ---------------MLVTFADSHSALSVLDVDGMKVKGRAVKISGPSS   94 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETTE---------------EEEECSCSHHHHHHHHGGGSEETTEEEEEECCCC
T ss_pred             HHHHHHHHHCCCEEEEEEecCc---------------EEEEEcChHHHHHHHhcCCeeeCCeEEEEeccCC
Confidence            6799999999999999998653               9999999999999984 69999999999998543

>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=97.38  E-value=0.00018  Score=63.30  Aligned_cols=72  Identities=17%  Similarity=0.112  Sum_probs=63.0

Q ss_pred             CEEEEeCCCCCCCC----HHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          177 RTLFVNNVPLKSNR----REALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       177 ~tLfVgnLp~d~~t----e~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ++|+|.||+.+-..    .+.++.+|..|+++......+.-....|.|.+.++|.+|...|++ .++|+.|+|+|+.
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq   82 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcceEEEEEeCChHHHHHHHHHhccceecCceeEEEecC
Confidence            58999999874223    256799999999999888887777899999999999999999999 7999999999997

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.15  E-value=0.00096  Score=59.15  Aligned_cols=71  Identities=14%  Similarity=0.239  Sum_probs=64.1

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcc-----cceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSY-----GDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--  533 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~f-----Gei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--  533 (634)
                      ++.+++|.|. +||+.++ ++-+|..+..|     |+|..|.+.++-             ..|+|.|.+...|=||++  
T Consensus        18 ~~~~rtiaL~-~ipDtvn-darIr~lve~~~~i~~g~i~KI~L~pDH-------------~GAivef~d~~~AgKasLaL   82 (117)
T 2l9w_A           18 KELETLICLF-PLSDKVS-PSLICQFLQEEIHINEKDIRKILLVSDF-------------NGAIIIFRDSKFAAKMLMIL   82 (117)
T ss_dssp             TTTTSCEEEE-CCCTTCC-HHHHHHHHHHHTCCCTTTCSEEEEETTT-------------TEEEEECSCHHHHHHHHHHH
T ss_pred             ccCCcEEEEe-cCCCCCC-HHHHHHHHhhhhccCccceeEEEEecCC-------------CceEEEEccchhhHHHHhhc
Confidence            5668899995 8999997 89999999999     999999999987             789999999999999985  


Q ss_pred             cCCccCCceeEEE
Q 048615          534 SGKSWQGHDLQFT  546 (634)
Q Consensus       534 ~g~~~~g~~l~l~  546 (634)
                      +|..|.|+.|++.
T Consensus        83 ~G~ef~gr~Lr~g   95 (117)
T 2l9w_A           83 NGSQFQGKVIRSG   95 (117)
T ss_dssp             SSEEETTEEEEEE
T ss_pred             CCeeecCeEEEec
Confidence            5999999999875

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.08  E-value=0.0033  Score=55.07  Aligned_cols=70  Identities=20%  Similarity=0.126  Sum_probs=61.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhcc-C----CCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQK-F----GEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~Fsk-f----G~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak  248 (634)
                      .++|.|.|||++ ++++.|.-+|+. .    |.|..|....  +-|+|+|.+++.|++.++.-...|+|..|.|.-+.
T Consensus         8 ~~~I~V~~lPp~-~~~e~L~LYFEn~rrsGGG~V~~v~~~~--~~AvItF~d~~va~rVL~k~~H~L~~~~LsV~P~~   82 (104)
T 2dhx_A            8 GVAVEVRGLPPA-VPDELLTLYFENRRRSGGGPVLSWQRLG--CGGVLTFREPADAERVLAQADHELHGAQLSLRPAP   82 (104)
T ss_dssp             CCEEEEESCCTT-SCHHHHHHHHHCTTTTCCCCEEEEEEET--TEEEEEESSHHHHHHHHTCSCCBSSSSBCEEEECC
T ss_pred             ccEEEEECCCCC-CChhHheEEEeCCCcCCCceeeEEEEcC--CcEEEEEcChHHHHHHhcCCcceecCeEEEEEcCC
Confidence            579999999996 999999999987 2    6899988766  78999999999999999998888999999997543

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=96.91  E-value=0.00093  Score=61.06  Aligned_cols=90  Identities=18%  Similarity=0.185  Sum_probs=55.9

Q ss_pred             ccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeE-EEecCCccccCCC---CCC-C--CCCceEEEEecChHHHHHH
Q 048615          459 KLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLAS-VELEDGEVLEGDN---GSD-A--SKNCQVRVSFTTRRSAERA  531 (634)
Q Consensus       459 ~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~s-v~~~~~~~~~~~~---~~~-~--~~~~~~~V~F~tR~~AE~A  531 (634)
                      -|-|..+.|.|=|. |...  ...+.+||.+||+|.. +...+....-...   ... |  +-.++..|+|.++.+|.||
T Consensus         2 ~~~~~e~~VtVFGF-p~~~--~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rA   78 (132)
T 3p3d_A            2 SLSNGELAILVFGY-PETM--ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDA   78 (132)
T ss_dssp             ------CEEEEECC-CGGG--HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHH
T ss_pred             CcccCceEEEEEec-CHHH--HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHH
Confidence            36677888898765 5544  5789999999999943 2111100000000   000 0  0137999999999999999


Q ss_pred             HH-cCCccCCceeEEEEeCCC
Q 048615          532 FL-SGKSWQGHDLQFTWLMPS  551 (634)
Q Consensus       532 ~~-~g~~~~g~~l~l~W~~~~  551 (634)
                      +. +|..|.|..|=+.|+...
T Consensus        79 L~~NG~ii~G~mIGV~Py~~~   99 (132)
T 3p3d_A           79 LLENGAVFNGVLLGVIPYTKD   99 (132)
T ss_dssp             HTTTTCEETTEECEEEECCHH
T ss_pred             HHhCCeEeCcEEEEEEECCHH
Confidence            96 499999998888888643

>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=96.54  E-value=0.0083  Score=54.00  Aligned_cols=69  Identities=16%  Similarity=0.280  Sum_probs=58.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccC-CeEEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMG-NRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~-gR~IkV~wa  247 (634)
                      .+.|.|.+.|+.  .-..+..+|++||.|++........+-.|.|.++.+|++||.. || +|+ +-.|-|.+.
T Consensus        24 ~~wVtVFGFp~~--~~~~VL~~F~~~G~Iv~~~~~~~~NWihI~Y~s~~~A~rAL~k-NG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           24 DTWVTVFGFPQA--SASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALSK-DGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GGEEEEECCCGG--GHHHHHHHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHHTT-TTCEETTTEECEEEEC
T ss_pred             CCEEEEECCCHH--HHHHHHHHHHhhCcEEEeccCCCCCeEEEEeCCHHHHHHHHHh-CCeEecCCEEEEEEEC
Confidence            579999999995  6788999999999999998755667999999999999999987 66 777 466777775

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.59  E-value=0.067  Score=46.87  Aligned_cols=73  Identities=21%  Similarity=0.273  Sum_probs=61.1

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcc-----cceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSY-----GDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~f-----Gei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~  537 (634)
                      -++|.|. +||+++. ++.|.-||++=     |+|.+|+..+               +.|+|+|.+...|++.+.+ --.
T Consensus         8 ~~~I~V~-~lPp~~~-~e~L~LYFEn~rrsGGG~V~~v~~~~---------------~~AvItF~d~~va~rVL~k~~H~   70 (104)
T 2dhx_A            8 GVAVEVR-GLPPAVP-DELLTLYFENRRRSGGGPVLSWQRLG---------------CGGVLTFREPADAERVLAQADHE   70 (104)
T ss_dssp             CCEEEEE-SCCTTSC-HHHHHHHHHCTTTTCCCCEEEEEEET---------------TEEEEEESSHHHHHHHHTCSCCB
T ss_pred             ccEEEEE-CCCCCCC-hhHheEEEeCCCcCCCceeeEEEEcC---------------CcEEEEEcChHHHHHHhcCCcce
Confidence            4689995 7899885 88999999982     6999999876               3699999999999999988 668


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      +++..|.+.=+.+..+
T Consensus        71 L~~~~LsV~P~~~~~~   86 (104)
T 2dhx_A           71 LHGAQLSLRPAPPRAP   86 (104)
T ss_dssp             SSSSBCEEEECCCCCC
T ss_pred             ecCeEEEEEcCCCCCc
Confidence            8999999975555443

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=95.28  E-value=0.012  Score=53.78  Aligned_cols=71  Identities=15%  Similarity=0.208  Sum_probs=56.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEE-EEec-------------------CCCeEEEEeCCHHHHHHHHHcCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDI-YIPL-------------------NSERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v-~v~~-------------------dkg~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ...|.|.+.|++  ....+..+|++||.|++- .+..                   ...+-.|+|+++.+|.+|+....-
T Consensus         7 e~~VtVFGFp~~--~~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~   84 (132)
T 3p3d_A            7 ELAILVFGYPET--MANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGA   84 (132)
T ss_dssp             -CEEEEECCCGG--GHHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTC
T ss_pred             ceEEEEEecCHH--HHHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCe
Confidence            468899999995  778889999999999872 1110                   234789999999999999986444


Q ss_pred             ccCCeEEEEEeec
Q 048615          236 VMGNRFIKLWWAN  248 (634)
Q Consensus       236 ~l~gR~IkV~wak  248 (634)
                      +|+|..|-|.+..
T Consensus        85 ii~G~mIGV~Py~   97 (132)
T 3p3d_A           85 VFNGVLLGVIPYT   97 (132)
T ss_dssp             EETTEECEEEECC
T ss_pred             EeCcEEEEEEECC
Confidence            8999999998874

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.16  E-value=0.008  Score=65.99  Aligned_cols=55  Identities=20%  Similarity=0.350  Sum_probs=43.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCC-eEEEEeCCHHHHHHHHHc
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-RAFVQFSKREEAEAALKS  232 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg-~AFV~F~s~e~A~~Ai~~  232 (634)
                      .++|||. +|.+ +++.+|.++|++||.|.++.+..++| ||.|+|.+.+++..++..
T Consensus        53 ~rsv~v~-~~~~-~~~~~l~~y~~~~g~i~~~~~~~~~g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           53 QRTVLIH-CPEK-ISENKFLKYLSQFGPINNHFFYESFGLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HTEEEEE-ECCC----CHHHHHHGGGSCCCCEEEECSSSEEEEEECC---CCHHHHSS
T ss_pred             cceEEEE-cCCC-CCHHHHHHHHHhcCCcceEEEEccCCeEEEEEeCCHHHHHHHHhc
Confidence            4799997 6885 99999999999999999999998887 999999999999977655

>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=93.58  E-value=0.26  Score=42.20  Aligned_cols=58  Identities=21%  Similarity=0.275  Sum_probs=50.0

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC--------CeEEEEeCCHHHHHHHHHcCCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--------ERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk--------g~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ++|.|++||+ +++++++.+.++....+........+        ..|||.|.+.+++..-.+.++|
T Consensus         2 ~KvVIRrLPP-~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g   67 (91)
T 1uw4_A            2 SKVVIRRLPP-TLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDG   67 (91)
T ss_dssp             CEEEEEEECT-TCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTT
T ss_pred             cEEEEeCCCC-CCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Confidence            5899999999 59999999999999887766655433        2799999999999999999988

>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=92.48  E-value=0.18  Score=43.81  Aligned_cols=53  Identities=26%  Similarity=0.419  Sum_probs=42.3

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~l  233 (634)
                      ..++| +.|.+ +...+|.++|+.||.| .|+.+- ---|||.|.+++.|..|+..+
T Consensus        17 HVf~l-~FP~e-wKt~DI~~lFs~fggv-~I~Wid-DTsAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           17 HVLHV-TFPKE-WKTSDLYQLFSAFGNI-QISWID-DTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             SEEEE-ECCTT-CCHHHHHHHHTTTCSC-CCEEEE-TTEEEEECSCHHHHHHHHHHH
T ss_pred             eEEEE-eCChh-hhhHHHHHHhhccCCE-EEEEEc-CCeEEEEecCHHHHHHHHHhc
Confidence            45555 99996 8999999999999954 343333 357999999999999999865

>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=89.36  E-value=0.33  Score=42.18  Aligned_cols=53  Identities=23%  Similarity=0.362  Sum_probs=42.1

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcC
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSP  233 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~l  233 (634)
                      .||+-+.|.+ +...+|..+|+.||. ..|+.+- ---|||.|.+++.|..|+..+
T Consensus         7 HV~~l~FP~e-wKt~Di~~lFs~fgg-v~I~Wid-DTsAlvvf~~~~~a~~al~~i   59 (101)
T 3ctr_A            7 HVLHVTFPKE-WKTSDLYQLFSAFGN-IQISWID-DTSAFVSLSQPEQVKIAVNTS   59 (101)
T ss_dssp             EEEEEECCTT-CCHHHHHHHTTTSEE-EEEEEEE-TTEEEEEEEEECHHHHHHHHH
T ss_pred             eEEEEeCChh-hhhHHHHHHHhccCC-EEEEEEc-CCeEEEEecCHHHHHHHHHhc
Confidence            3444499996 899999999999994 3444433 357999999999999999865

>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=88.93  E-value=1.4  Score=38.64  Aligned_cols=74  Identities=15%  Similarity=0.210  Sum_probs=59.6

Q ss_pred             cceEEEcCCCCCCC-CC---HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          464 PTAFRIMPPLPVGF-AD---VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~~-~~---~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      |++|.|. .|+..+ .+   .+.++++|.+|+++.+...-..-             .-++|.|.+-.+|.+|-.  ++..
T Consensus         5 pntLiit-nl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSF-------------RRirv~F~~~~~A~~AR~~Lh~~~   70 (104)
T 1wey_A            5 SSGLIAC-VANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-------------KRVRINFSNPLSAADARLRLHKTE   70 (104)
T ss_dssp             CCEEEEE-CCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-------------TEEEEECSSTTHHHHHHHTSTTSE
T ss_pred             CceEEEe-cCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcc-------------eEEEEEeCChHHHHHHHHHhccce
Confidence            6788884 566643 32   26789999999999998876554             689999999999999975  5999


Q ss_pred             cCCceeEEEEeCCC
Q 048615          538 WQGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~~g~~l~l~W~~~~  551 (634)
                      |.|..+++=.+.+.
T Consensus        71 f~g~~~r~YFgq~~   84 (104)
T 1wey_A           71 FLGKEMKLYFAQTL   84 (104)
T ss_dssp             ETTEECEEECCCCS
T ss_pred             ecCceeEEEecCCC
Confidence            99999999988743

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=85.91  E-value=0.97  Score=39.10  Aligned_cols=59  Identities=12%  Similarity=0.156  Sum_probs=45.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC--------CeEEEEeCCHHHHHHHHHcCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--------ERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk--------g~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      .-+|.|+.||+ .+|++++.+.++..-.+........+        ..|||.|.+.++...-.+..+|
T Consensus         9 ~~KvVIRrLPP-~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g   75 (97)
T 2l08_A            9 SHMVVIRRLPP-GLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDG   75 (97)
T ss_dssp             CCCEEEECCCS-CSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTT
T ss_pred             ceeEEEeCCCC-CCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCC
Confidence            35899999999 59999988888876554332222211        2799999999999999999999

>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=82.93  E-value=2.4  Score=36.76  Aligned_cols=52  Identities=15%  Similarity=0.340  Sum_probs=38.9

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL  533 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~  533 (634)
                      +..|.|  ..|.+.. -.+|.+-|..||-| .|.     +.||         .+|+|.|.+|..|..|+.
T Consensus        16 ~HVf~l--~FP~ewK-t~DI~~lFs~fggv-~I~-----WidD---------TsAlvvf~~~~~a~~al~   67 (100)
T 1whv_A           16 DHVLHV--TFPKEWK-TSDLYQLFSAFGNI-QIS-----WIDD---------TSAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CSEEEE--ECCTTCC-HHHHHHHHTTTCSC-CCE-----EEET---------TEEEEECSCHHHHHHHHH
T ss_pred             CeEEEE--eCChhhh-hHHHHHHhhccCCE-EEE-----EEcC---------CeEEEEecCHHHHHHHHH
Confidence            444444  6788886 89999999999944 222     2223         489999999999999876

>3lcn_C MRNA transport factor GFD1; nuclear mRNA export, metal-binding, nucleus, RNA-binding, ZI finger, membrane, nuclear pore complex; 2.00A {Saccharomyces cerevisiae}

Probab=82.14  E-value=1.2  Score=29.35  Aligned_cols=19  Identities=37%  Similarity=0.443  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 048615          343 KQELLDQKRNDFRRQLDKL  361 (634)
Q Consensus       343 KqelL~kq~eeqk~ll~kL  361 (634)
                      |-+||+++|||||.++++-
T Consensus         7 Km~lLKKKIEEQr~i~~~~   25 (29)
T 3lcn_C            7 KMKLLKKKIEEQREILQKT   25 (29)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            6679999999999998764

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=81.31  E-value=0.77  Score=50.31  Aligned_cols=56  Identities=13%  Similarity=0.091  Sum_probs=40.7

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS  534 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~  534 (634)
                      -++|+|+  .|..++ +.+|.+||.+||.|.++......            ...++|.|.++.++..++..
T Consensus        53 ~rsv~v~--~~~~~~-~~~l~~y~~~~g~i~~~~~~~~~------------g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           53 QRTVLIH--CPEKIS-ENKFLKYLSQFGPINNHFFYESF------------GLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HTEEEEE--ECCC----CHHHHHHGGGSCCCCEEEECSS------------SEEEEEECC---CCHHHHSS
T ss_pred             cceEEEE--cCCCCC-HHHHHHHHHhcCCcceEEEEccC------------CeEEEEEeCCHHHHHHHHhc
Confidence            3678886  366665 89999999999999999987655            28999999999999866433

---

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	634
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	2e-10
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-09
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	2e-09
d1x4da1	89	d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [	3e-09
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-09
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	1e-08
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	4e-08
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-08
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	2e-07
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	3e-07
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	5e-07
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	5e-07
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	1e-06
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-06
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	3e-06
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-06
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	5e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	7e-06
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	7e-06
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	9e-06
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	1e-05
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	1e-05
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	1e-05
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	2e-05
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-05
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-05
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	3e-05
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	3e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-05
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	4e-05
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	5e-05
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	5e-05
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	5e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	6e-05
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	7e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	1e-04
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-04
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	3e-04
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	3e-04
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	7e-04
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	8e-04
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	0.001
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	0.001
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	0.002

>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 = 54.9 bits (132), Expect = 2e-10
 Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 8/80 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAALK 231
           +L+V ++         L   F   G ++ I +  +         A+V F +  +AE AL 
Sbjct: 2   SLYVGDLH-PDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 60

Query: 232 SPD-AVMGNRFIKLWWANRD 250
           + +  V+  + +++ W+ RD
Sbjct: 61  TMNFDVIKGKPVRIMWSQRD 80

>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 = 53.4 bits (128), Expect = 1e-09
 Identities = 18/90 (20%), Positives = 36/90 (40%), Gaps = 10/90 (11%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-------AFVQFSKR 223
           P ++    + V N+P     +  +   F  FGE+  + +P             FV F  +
Sbjct: 3   PKKQTTSKILVRNIP-FQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITK 61

Query: 224 EEAEAALKSPD--AVMGNRFIKLWWANRDS 251
           ++A+ A  +      +  R + L WA+ + 
Sbjct: 62  QDAKKAFNALCHSTHLYGRRLVLEWADSEV 91

>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 = 52.7 bits (126), Expect = 2e-09
 Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 5/89 (5%)

Query: 163 DHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSK 222
           + + N   P      T++   +       + +   F  FG++++I +      +FV+FS 
Sbjct: 8   EDVVNQSSPKN---CTVYCGGIA-SGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFST 63

Query: 223 REEAEAALKSPD-AVMGNRFIKLWWANRD 250
            E A  A+ S +   +    +K +W    
Sbjct: 64  HESAAHAIVSVNGTTIEGHVVKCYWGKES 92

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

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]

 Score = 52.4 bits (125), Expect = 3e-09
 Identities = 13/85 (15%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKR---EE 225
           +K   +  R + + +     N R  LL   + FG + +  I      AF++ +     + 
Sbjct: 1   QKGRVETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQA 60

Query: 226 AEAALKSPDAVMGNRFIKLWWANRD 250
           A     +  A++  + +++  + + 
Sbjct: 61  AVDYYTTTPALVFGKPVRVHLSQKY 85

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

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]

 Score = 51.0 bits (122), Expect = 8e-09
 Identities = 17/83 (20%), Positives = 36/83 (43%), Gaps = 3/83 (3%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-A 235
             +F+ N+     ++  + + F K+G++V   +      AFVQ+     A AA+   D  
Sbjct: 16  SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGF--AFVQYVNERNARAAVAGEDGR 73

Query: 236 VMGNRFIKLWWANRDSIPDDGIS 258
           ++  + + +  A    +   G S
Sbjct: 74  MIAGQVLDINLAAEPKVNRSGPS 96

>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 = 50.0 bits (119), Expect = 1e-08
 Identities = 18/84 (21%), Positives = 39/84 (46%), Gaps = 4/84 (4%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEA 228
           +  +Q+    LFV N+P      E +   F+K+G+  +++I  +    F++   R  AE 
Sbjct: 3   KTFTQR--SRLFVGNLP-PDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEI 59

Query: 229 ALKSPD-AVMGNRFIKLWWANRDS 251
           A    D   +  + +++ +A   +
Sbjct: 60  AKVELDNMPLRGKQLRVRFACHSA 83

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

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]

 Score = 49.4 bits (117), Expect = 4e-08
 Identities = 14/83 (16%), Positives = 24/83 (28%), Gaps = 5/83 (6%)

Query: 178 TLFVNNVPLK----SNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSP 233
            L            S  R    S F+ + +        + +R  + FS    A  A    
Sbjct: 7   GLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRL 66

Query: 234 DA-VMGNRFIKLWWANRDSIPDD 255
                  + +KL++A    I   
Sbjct: 67  HKTEFLGKEMKLYFAQTLHIGSS 89

>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 = 48.4 bits (115), Expect = 4e-08
 Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 7/75 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAALKS 232
           +F+  +      +E L  +F +FGEV +  +  +          FV F  +   +  L  
Sbjct: 3   MFIGGLS-WQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61

Query: 233 PDAVMGNRFIKLWWA 247
               + ++ I    A
Sbjct: 62  SRHELDSKTIDPKVA 76

>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 = 46.9 bits (111), Expect = 2e-07
 Identities = 22/80 (27%), Positives = 43/80 (53%), Gaps = 10/80 (12%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             L+V N+P ++   + L + F K+G +V   I  +         AFV+++KREEA+ A+
Sbjct: 7   TNLYVTNLP-RTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 65

Query: 231 KSPDAVM---GNRFIKLWWA 247
            + + V+   G++ + +  A
Sbjct: 66  SALNNVIPEGGSQPLSVRLA 85

>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 = 46.9 bits (111), Expect = 3e-07
 Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 11/85 (12%)

Query: 173 QKALR---TLFVNNVPLKSNRREALLSHFQKFGEVV------DIYIPLNSERAFVQFSKR 223
           +K L+   TL+V N+       E +   F K G++       D          FV++  R
Sbjct: 1   EKLLKKSCTLYVGNLS-FYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSR 59

Query: 224 EEAEAALKSPD-AVMGNRFIKLWWA 247
            +AE A++  +   + +R I+  W 
Sbjct: 60  ADAENAMRYINGTRLDDRIIRTDWD 84

>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 = 45.8 bits (108), Expect = 5e-07
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 11/85 (12%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---------AFVQFSKREEAEAA 229
           LF+ N+   S   E L   F K G +    I     +          FV++ K E+A+ A
Sbjct: 1   LFIKNLN-FSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 59

Query: 230 LKSPD-AVMGNRFIKLWWANRDSIP 253
           LK      +    +++  + R + P
Sbjct: 60  LKQLQGHTVDGHKLEVRISERATKP 84

>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 = 46.5 bits (110), Expect = 5e-07
 Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 5/79 (6%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER---AFVQFSKREEAEAALKSP 233
           R L++ N+P      E +   F K+G +  I +    E    A+V +    +A+ A    
Sbjct: 8   RILYIRNLP-YKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHL 66

Query: 234 D-AVMGNRFIKLWWANRDS 251
               + NR++ + + N + 
Sbjct: 67  SGFNVCNRYLVVLYYNANR 85

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 6/80 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER----AFVQFSKREEAEAALKS 232
           RTL+V N+  +      +L  F + G      +           FV+F +  +A AAL +
Sbjct: 9   RTLYVGNLS-RDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAA 67

Query: 233 PD-AVMGNRFIKLWWANRDS 251
            +   +  + +K+ WA   S
Sbjct: 68  MNGRKILGKEVKVNWATTPS 87

>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 = 43.4 bits (102), Expect = 3e-06
 Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 8/91 (8%)

Query: 170 KPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKR 223
           K + +    L V  +P      + L  +F  FGEV+ + +  + +        FV+F++ 
Sbjct: 2   KRAVQKTSDLIVLGLP-WKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEY 60

Query: 224 EEAEAALKSPDAVMGNRFIKLWWANRDSIPD 254
           E     +     + G R+      N     D
Sbjct: 61  ETQVKVMSQRHMIDG-RWCDCKLPNSKQSQD 90

>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 = 43.0 bits (101), Expect = 3e-06
 Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 7/76 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALKSP 233
           L V+N+         +   F +FG +    +  +        A V F ++ +A  A+K  
Sbjct: 3   LLVSNLD-FGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 61

Query: 234 D-AVMGNRFIKLWWAN 248
           +   +  R + +    
Sbjct: 62  NGVPLDGRPMNIQLVT 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 = 42.7 bits (100), Expect = 5e-06
 Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 7/71 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           +F+  +      ++ L  +F KFGEVVD  + L+          FV F + E  +  +  
Sbjct: 2   MFIGGLS-WDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQ 60

Query: 233 PDAVMGNRFIK 243
            +  +  + I 
Sbjct: 61  KEHKLNGKVID 71

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

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]

 Score = 43.1 bits (101), Expect = 5e-06
 Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 5/90 (5%)

Query: 164 HMRNIRKPSQK--ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE-RAFVQF 220
           HM      S+K  A RTL   N+   +   + L   F+   E+  +     S+  A+++F
Sbjct: 2   HMLEDPCTSKKVRAARTLLAKNLS-FNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEF 60

Query: 221 SKREEAEAALKSPD-AVMGNRFIKLWWANR 249
               +AE  L+    A +  R + L++   
Sbjct: 61  KSEADAEKNLEEKQGAEIDGRSVSLYYTGE 90

>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 = 42.3 bits (99), Expect = 7e-06
 Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 7/71 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALKS 232
           +FV  +       E +  +F  FGEV  I +P++++        F+ F + E  +  ++ 
Sbjct: 2   IFVGGLS-PDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60

Query: 233 PDAVMGNRFIK 243
               +G    +
Sbjct: 61  KYHNVGLSKCE 71

>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 = 42.7 bits (100), Expect = 7e-06
 Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 8/82 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAAL 230
            T++V  +  +      L   F + G VV+ ++P +          FV+F   E+A+ A+
Sbjct: 10  ATVYVGGLD-EKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 68

Query: 231 KSPD-AVMGNRFIKLWWANRDS 251
           K  D   +  + I++  A+  +
Sbjct: 69  KIMDMIKLYGKPIRVNKASAHN 90

>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 = 41.9 bits (98), Expect = 9e-06
 Identities = 17/77 (22%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAALK 231
            L VN +P +      L + F+  G +    I  + +       AFV F+   +++ A+K
Sbjct: 4   NLIVNYLP-QDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 62

Query: 232 SPD-AVMGNRFIKLWWA 247
             +   + N+ +K+ +A
Sbjct: 63  VLNGITVRNKRLKVSYA 79

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 1e-05
 Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 8/78 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVV------DIYIPLNSERAFVQFSKREEAEAAL 230
           R L+V  +  +    + L + F  FG++       D     +   AFV+F   E+A AA+
Sbjct: 6   RVLYVGGLA-EEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64

Query: 231 KSPD-AVMGNRFIKLWWA 247
            + + + +  R I++  A
Sbjct: 65  DNMNESELFGRTIRVNLA 82

>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 = 42.0 bits (98), Expect = 1e-05
 Identities = 19/89 (21%), Positives = 39/89 (43%), Gaps = 11/89 (12%)

Query: 170 KPSQKALRTLFVNNVPLKSN------RREALLSHFQKFGEVVDIYIPLNSERAFVQFSKR 223
           +P+     T+++NN+  K           A+ S F +  +++         +AFV F + 
Sbjct: 1   RPN----HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEV 56

Query: 224 EEAEAALKSPD-AVMGNRFIKLWWANRDS 251
             A  AL+S       ++ +++ +A  DS
Sbjct: 57  SSATNALRSMQGFPFYDKPMRIQYAKTDS 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 = 41.7 bits (97), Expect = 1e-05
 Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 7/80 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL-------NSERAFVQFSKREEAEAA 229
           R + + N+  +      L   F+ FG +  I IP        N+  AF+ F  ++ AE A
Sbjct: 5   REIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERA 64

Query: 230 LKSPDAVMGNRFIKLWWANR 249
           L+   +++GNR I +  A++
Sbjct: 65  LQMNRSLLGNREISVSLADK 84

>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 = 42.0 bits (98), Expect = 2e-05
 Identities = 17/85 (20%), Positives = 39/85 (45%), Gaps = 7/85 (8%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSK 222
           +K  ++  R LF+  +       E+L ++++++G++ D  +  +          FV FS 
Sbjct: 13  KKREKEQFRKLFIGGLS-FETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSS 71

Query: 223 REEAEAALKSPDAVMGNRFIKLWWA 247
             E +AA+ +    +  R ++   A
Sbjct: 72  MAEVDAAMAARPHSIDGRVVEPKRA 96

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

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]

 Score = 41.5 bits (97), Expect = 2e-05
 Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 5/79 (6%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-A 235
           + L+V N+   S   E +   F          +    + AFV FS RE+A  A+K+ +  
Sbjct: 9   KILYVRNLM-LSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGK 67

Query: 236 VMGNRFIKLWWA---NRDS 251
           V+    I++  A   ++DS
Sbjct: 68  VLDGSPIEVTLAKPVDKDS 86

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

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]

 Score = 41.7 bits (97), Expect = 2e-05
 Identities = 13/86 (15%), Positives = 30/86 (34%), Gaps = 4/86 (4%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-- 234
             + V  +       + L+   +KFG +  + +     +A V+F   + A+  +      
Sbjct: 16  PVVHVRGLCESVVEAD-LVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADV 74

Query: 235 -AVMGNRFIKLWWANRDSIPDDGISG 259
              +  +     ++    I   G SG
Sbjct: 75  PVYIAGQQAFFNYSTSKRITRPGNSG 100

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

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 2/75 (2%)

Query: 160 AQNDHMRNIR-KPSQKALRTLFVNNVPLKSN-RREALLSHFQKFGEVVDIYIPLNSERAF 217
           A++  +R+   +    A ++L V N  L +   R  LL   +K G V  + +P N   +F
Sbjct: 1   AKHTLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSF 60

Query: 218 VQFSKREEAEAALKS 232
            ++   EE++ A  +
Sbjct: 61  ARYRTTEESKRAYVT 75

>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 = 40.5 bits (94), Expect = 3e-05
 Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 7/75 (9%)

Query: 179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAALKS 232
           +FV  +   +   E +  +F++FG+V D  +  +          FV F   +  E   + 
Sbjct: 2   IFVGGLS-VNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEI 60

Query: 233 PDAVMGNRFIKLWWA 247
               + N+ ++   A
Sbjct: 61  HFHEINNKMVECKKA 75

>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 = 43.1 bits (100), Expect = 3e-05
 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 9/86 (10%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSK 222
           ++P Q  LR LF+  +       E+L SHF+++G + D  +  +          FV ++ 
Sbjct: 1   KEPEQ--LRKLFIGGLS-FETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYAT 57

Query: 223 REEAEAALKSPDAVMGNRFIKLWWAN 248
            EE +AA+ +    +  R ++   A 
Sbjct: 58  VEEVDAAMNARPHKVDGRVVEPKRAV 83

>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 = 40.3 bits (94), Expect = 4e-05
 Identities = 9/65 (13%), Positives = 23/65 (35%), Gaps = 2/65 (3%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAVM 237
            + V   P        +L  F ++G ++   +        +++  + +A  AL     + 
Sbjct: 6   WVTVFGFP--QASASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALSKDGRIF 63

Query: 238 GNRFI 242
           G   +
Sbjct: 64  GESIM 68

>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 = 40.1 bits (93), Expect = 5e-05
 Identities = 11/77 (14%), Positives = 30/77 (38%), Gaps = 6/77 (7%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-----SERAFVQFSKREEAEAALK 231
           R++++   P      + +    +  G+V++I +            FV F   E A+  ++
Sbjct: 7   RSVYIKGFP-TDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE 65

Query: 232 SPDAVMGNRFIKLWWAN 248
           +P        + + + +
Sbjct: 66  TPGQKYKETDLLILFKD 82

>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 = 40.5 bits (94), Expect = 5e-05
 Identities = 18/83 (21%), Positives = 35/83 (42%), Gaps = 7/83 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             +FV  +P       +L  +F+ FG++ +  +  + +        FV  + R  AE A 
Sbjct: 11  TKIFVGGLP-YHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERAC 69

Query: 231 KSPDAVMGNRFIKLWWANRDSIP 253
           K P+ ++  R   +  A   + P
Sbjct: 70  KDPNPIIDGRKANVNLAYLGAKP 92

>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 = 40.4 bits (94), Expect = 5e-05
 Identities = 16/84 (19%), Positives = 31/84 (36%), Gaps = 7/84 (8%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKRE 224
           P ++  RT+F   +     R   L   F   G+V D+ I  +         A+V+F + +
Sbjct: 13  PEERDARTVFCMQLA-ARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQ 71

Query: 225 EAEAALKSPDAVMGNRFIKLWWAN 248
               A+      +    I +  + 
Sbjct: 72  SVPLAIGLTGQRLLGVPIIVQASQ 95

>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 = 40.1 bits (93), Expect = 6e-05
 Identities = 21/91 (23%), Positives = 33/91 (36%), Gaps = 12/91 (13%)

Query: 178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--------AFVQFSKREEAEAA 229
            LF+  +P K  +RE +L    K  E V   I   S          AFV++     A  A
Sbjct: 3   RLFIGGIP-KMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 61

Query: 230 LKS---PDAVMGNRFIKLWWANRDSIPDDGI 257
            +        +    I + WA  +   D+ +
Sbjct: 62  RRKLMPGRIQLWGHQIAVDWAEPEIDVDEDV 92

>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 = 39.6 bits (92), Expect = 7e-05
 Identities = 19/80 (23%), Positives = 37/80 (46%), Gaps = 10/80 (12%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSKREEAEAAL 230
             L+V+ +P K+  ++ L   F ++G ++   I ++          F++F KR EAE A+
Sbjct: 7   ANLYVSGLP-KTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 65

Query: 231 KSPDAVM---GNRFIKLWWA 247
           K  +          I + +A
Sbjct: 66  KGLNGQKPSGATEPITVKFA 85

>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 = 38.9 bits (90), Expect = 1e-04
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 8/78 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAAL 230
             L VN +P ++  +E   S F   GE+    +  +          FV +   ++AE A+
Sbjct: 3   TNLIVNYLP-QNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61

Query: 231 KSPD-AVMGNRFIKLWWA 247
            + +   +  + IK+ +A
Sbjct: 62  NTLNGLRLQTKTIKVSYA 79

>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 = 39.3 bits (91), Expect = 1e-04
 Identities = 17/97 (17%), Positives = 35/97 (36%), Gaps = 7/97 (7%)

Query: 169 RKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER------AFVQFSK 222
            +  +    T F+ N+P      E++   F+             S         + +F  
Sbjct: 8   SRLPKSPPYTAFLGNLP-YDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFED 66

Query: 223 REEAEAALKSPDAVMGNRFIKLWWANRDSIPDDGISG 259
            +   +AL   +  +GN+ I++  A++    D G S 
Sbjct: 67  LDSLLSALSLNEESLGNKRIRVDVADQAQDKDSGPSS 103

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {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: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 3e-04
 Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 7/85 (8%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER-AFVQFSKREEAEAALKSPDA 235
             +FV          + L   F ++G+V+D++IP      AFV F+  + A++       
Sbjct: 6   SGVFVGRCT-GDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGEDLI 64

Query: 236 VMGNRFIKLWWA----NRDSIPDDG 256
           + G   + +  A    N +S P  G
Sbjct: 65  IKG-ISVHISNAEPKHNSNSGPSSG 88

>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 = 37.8 bits (87), Expect = 3e-04
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 8/74 (10%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAAL 230
             L V  + L +  R+ L   F K+G + D+ I  + +       AFV F   ++A+ A 
Sbjct: 10  CCLGVFGLSLYTTERD-LREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 68

Query: 231 KSPD-AVMGNRFIK 243
           +  +   +  R I+
Sbjct: 69  ERANGMELDGRRIR 82

>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 = 36.5 bits (84), Expect = 7e-04
 Identities = 11/82 (13%), Positives = 30/82 (36%), Gaps = 8/82 (9%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSE------RAFVQFSKREEAEAAL 230
             LF+  +P      + +      FG +    +  +S        AF ++      + A+
Sbjct: 2   HKLFIGGLP-NYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 60

Query: 231 KSPD-AVMGNRFIKLWWANRDS 251
              +   +G++ + +  A+  +
Sbjct: 61  AGLNGMQLGDKKLLVQRASVGA 82

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

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]

 Score = 37.0 bits (85), Expect = 8e-04
 Identities = 15/77 (19%), Positives = 30/77 (38%), Gaps = 4/77 (5%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDAV 236
             L+V  +   +    AL   F +FG +  I        A++Q+   + A+AA       
Sbjct: 18  TRLWVGGLG-PNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGF 76

Query: 237 M---GNRFIKLWWANRD 250
                +R +++ +A   
Sbjct: 77  PLGGPDRRLRVDFAKSG 93

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

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]

 Score = 36.4 bits (83), Expect = 0.001
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD-- 234
           + LF+ N+P ++N     +   Q  G      +P   + AFV+F+   ++ AA ++    
Sbjct: 9   QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGF 68

Query: 235 AVMGNRFIKLWWANR 249
            +     +K+ +A +
Sbjct: 69  KITPTHAMKITFAKK 83

>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 = 36.9 bits (85), Expect = 0.001
 Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 6/87 (6%)

Query: 171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSER--AFVQFSKREEAEA 228
             Q  +  + V N+       + L   F KFG V+ I     + +  A +Q++    A+ 
Sbjct: 2   AGQSPVLRIIVENLFYPVTL-DVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQH 60

Query: 229 ALKSPDAV---MGNRFIKLWWANRDSI 252
           A  S D          +++ ++   S+
Sbjct: 61  AKLSLDGQNIYNACCTLRIDFSKLTSL 87

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

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]

 Score = 36.4 bits (83), Expect = 0.002
 Identities = 16/96 (16%), Positives = 38/96 (39%), Gaps = 5/96 (5%)

Query: 159 KAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALL-----SHFQKFGEVVDIYIPLNS 213
           K+ +   R+  +   +A   +++  +P ++  +  +         +    +        +
Sbjct: 1   KSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKAT 60

Query: 214 ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR 249
              FV+F    + +AAL      MGNRFI++    +
Sbjct: 61  GEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITK 96

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	634
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.84
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.72
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.68
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.66
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.64
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.64
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.64
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.63
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.63
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.63
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.63
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.62
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.62
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.62
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.62
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.62
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.61
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.61
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.61
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.6
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.6
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.6
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.6
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.59
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.59
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.59
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.59
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.59
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.58
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.58
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.58
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.58
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.57
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.57
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.57
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.57
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.57
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.56
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.56
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.56
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.55
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.55
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.55
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.55
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.55
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.54
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.54
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.54
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.54
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.54
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.53
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.53
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.53
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.53
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.53
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.53
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.52
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.51
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.51
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.49
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.48
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.48
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.48
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.48
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.48
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.47
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.46
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.46
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.46
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.46
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.45
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.45
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.44
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.43
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.43
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.37
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.37
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.33
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.29
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.29
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.27
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.25
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.25
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.24
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.24
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.22
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.21
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.21
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.21
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.2
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.19
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.17
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.17
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.17
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.17
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.17
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.16
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.15
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.14
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.14
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.13
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.13
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.13
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.12
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.12
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.11
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.11
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.11
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.1
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.09
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.08
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.08
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.07
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.07
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.07
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.06
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.06
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.05
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.05
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.05
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.05
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.05
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.05
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.05
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.04
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.04
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	99.04
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.03
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.02
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.01
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.01
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.01
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.0
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.99
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.99
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.98
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	98.98
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.98
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	98.97
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.97
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.97
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.96
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.96
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.96
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	98.96
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.95
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.95
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.93
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.93
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.92
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.92
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.91
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	98.91
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.89
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.88
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	98.88
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.86
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.86
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.85
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.84
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	98.76
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.76
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.75
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.73
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.72
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.71
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.68
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.58
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.56
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.56
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.23
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.87
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	94.54
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	93.4
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	93.3
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	82.54
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	81.49

>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=99.84  E-value=5.5e-21  Score=181.40  Aligned_cols=158  Identities=12%  Similarity=0.184  Sum_probs=128.4

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccCC
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKNM  154 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~~  154 (634)
                      .|+| +....+++.+..+|.++|.|..+..++++..+.++|||||+|.+.++| .|+ .+++..+.++.+.+.+......
T Consensus        10 fV~n-Lp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~-~~~~~~~~~~~~~~~~~~~~~~   87 (183)
T d1u1qa_          10 FIGG-LSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NARPHKVDGRVVEPKRAVSRED   87 (183)
T ss_dssp             EEES-CCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH-HTCSCEETTEECEEEECCCTTG
T ss_pred             EEEC-CCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHH-HhcCCcccccchhhhhhhhccc
Confidence            3444 445678888999999999998888888877788899999999999999 777 4577789999988876554331


Q ss_pred             CCccccccccccccCCCCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHH
Q 048615          155 DPSTKAQNDHMRNIRKPSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEA  228 (634)
Q Consensus       155 ~~~~~~~~d~~~~~~~~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~  228 (634)
                      ...            .......++|||+|||+. +++++|+++|+.||.|..+.|+.++      +||||+|.++++|.+
T Consensus        88 ~~~------------~~~~~~~~~i~V~~lp~~-~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~  154 (183)
T d1u1qa_          88 SQR------------PGAHLTVKKIFVGGIKED-TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK  154 (183)
T ss_dssp             GGS------------TTTTCCCSEEEEECCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHH
T ss_pred             ccc------------cccccccceeEEccCCCc-CCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHH
Confidence            110            011233679999999995 9999999999999999999998764      499999999999999


Q ss_pred             HHHcCCC-ccCCeEEEEEeecC
Q 048615          229 ALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       229 Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      |++. ++ .|+|+.|+|.||.+
T Consensus       155 Al~~-~~~~~~G~~i~V~~A~~  175 (183)
T d1u1qa_         155 IVIQ-KYHTVNGHNCEVRKALS  175 (183)
T ss_dssp             HHTS-SCEEETTEEEEEEECCC
T ss_pred             HHHh-CCCeECCEEEEEEecCC
Confidence            9974 55 89999999999863

>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=99.72  E-value=9.5e-17  Score=151.78  Aligned_cols=70  Identities=26%  Similarity=0.477  Sum_probs=61.2

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEe
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~w  246 (634)
                      .++|||+|||++ +++++|+++|++||.|.++.++.++      +||||+|.+.++|.+|+..+++.++++.+.+.+
T Consensus         6 ~r~lfV~nLp~~-~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~   81 (183)
T d1u1qa_           6 LRKLFIGGLSFE-TTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKR   81 (183)
T ss_dssp             HHEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEE
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhh
Confidence            479999999995 9999999999999999999998753      599999999999999999877777776665543

>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=99.68  E-value=3.6e-17  Score=140.88  Aligned_cols=75  Identities=20%  Similarity=0.411  Sum_probs=71.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ..++|||+|||.+ +++++|+++|++||.|.+|+|+++++||||+|.++++|.+|+..|+| .|+|+.|+|.|+++.
T Consensus        17 ~~~~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          17 KNCTVYCGGIASG-LTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES   92 (96)
T ss_dssp             SCCEEEEECCSSC-CCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCCEEEEcCCCCC-CCHHHHHHHHHHhCCceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            3589999999995 99999999999999999999999999999999999999999999999 899999999999753

>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=99.66  E-value=8.2e-17  Score=133.87  Aligned_cols=73  Identities=23%  Similarity=0.345  Sum_probs=68.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.++++|.+|++.|+| .++|+.|+|.||+
T Consensus         2 ~t~l~V~nLp~~-~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQD-MTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            579999999995 9999999999999999999998753      5999999999999999999999 8999999999997


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      |
T Consensus        81 p   81 (82)
T d1b7fa1          81 P   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.64  E-value=3.1e-16  Score=135.44  Aligned_cols=76  Identities=20%  Similarity=0.370  Sum_probs=68.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      .+++|||+|||+..+++++|+++|++||.|.+|.|.  ++||||+|.+.++|.+||+.|+| .|+||.|+|.|+++.+.
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~--rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~~~   90 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH--KGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKV   90 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE--TEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSCCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe--CCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            357899999975347889999999999999999984  68999999999999999999999 89999999999976544

>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=99.64  E-value=3.9e-16  Score=133.36  Aligned_cols=75  Identities=25%  Similarity=0.442  Sum_probs=69.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..+||||+|||+. +++++|+++|++||.|.+|.|+.++      |||||+|.+.++|..|++.|+| .|+||.|+|.|+
T Consensus         6 ~s~tlfV~nlp~~-~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           6 KSCTLYVGNLSFY-TTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TCCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3689999999995 9999999999999999999998865      4999999999999999999999 899999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      ...
T Consensus        85 ~~~   87 (93)
T d1h2vz_          85 AGF   87 (93)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            643

>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=99.64  E-value=2.3e-16  Score=131.00  Aligned_cols=73  Identities=23%  Similarity=0.362  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.+.++|.+|++.|+| .|+||.|+|.||+
T Consensus         2 ~t~l~V~nLp~~-~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1           2 KTNLIVNYLPQN-MTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             CSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            468999999995 9999999999999999999998763      5999999999999999999999 8999999999997


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      |
T Consensus        81 P   81 (82)
T d1fxla1          81 P   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.63  E-value=2.1e-16  Score=133.23  Aligned_cols=74  Identities=23%  Similarity=0.401  Sum_probs=70.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|++.++++||||+|.+.++|.+|++.|+| .|+|+.|+|.||...
T Consensus         8 ~~~l~V~nLp~~-~~~~~l~~~F~~~G~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~   82 (86)
T d2cpja1           8 RSRLFVGNLPPD-ITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHS   82 (86)
T ss_dssp             TTEEEEESCCTT-CCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCC
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHHhCCceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCc
Confidence            468999999995 99999999999999999999999999999999999999999999999 899999999999754

>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=99.63  E-value=3.8e-16  Score=129.56  Aligned_cols=72  Identities=24%  Similarity=0.474  Sum_probs=67.5

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.++++|..|++.|+| .++||+|+|.|++.+
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~~d   80 (80)
T d1cvja1           2 SLYVGDLHPD-VTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRD   80 (80)
T ss_dssp             EEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCCC
T ss_pred             EEEEeCCCCc-CCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCCC
Confidence            6999999995 9999999999999999999999864      5999999999999999999999 899999999999753

>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=99.63  E-value=8.6e-16  Score=132.43  Aligned_cols=76  Identities=26%  Similarity=0.373  Sum_probs=70.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.++      +||||+|.+.++|.+|++.|++ .|+||.|+|.|++
T Consensus         8 ~~~lfV~nL~~~-~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~   86 (99)
T d1whwa_           8 SGRLFVRNLSYT-SSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             CEEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCEEEEECCCCc-CCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            568999999995 9999999999999999999998764      5999999999999999999999 8999999999998


Q ss_pred             CCCC
Q 048615          249 RDSI  252 (634)
Q Consensus       249 ~~~~  252 (634)
                      ....
T Consensus        87 ~~~~   90 (99)
T d1whwa_          87 IKKE   90 (99)
T ss_dssp             CCST
T ss_pred             CCCc
Confidence            6543

>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=99.63  E-value=5.1e-16  Score=132.58  Aligned_cols=76  Identities=25%  Similarity=0.307  Sum_probs=70.2

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.+.++|.+|++.|+| .|+||.|+|.||
T Consensus         8 ~~~tlfV~nLp~~-~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A   86 (93)
T d1x5ua1           8 QDATVYVGGLDEK-VSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   86 (93)
T ss_dssp             TTTEEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCCEEEEeCCCCc-CCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            3689999999995 9999999999999999999998764      5999999999999999999999 799999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus        87 ~~~~   90 (93)
T d1x5ua1          87 SAHN   90 (93)
T ss_dssp             TTTS
T ss_pred             CCCC
Confidence            8654

>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=99.62  E-value=6.8e-16  Score=132.15  Aligned_cols=80  Identities=23%  Similarity=0.358  Sum_probs=71.7

Q ss_pred             CCCCCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          171 PSQKALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       171 ~s~~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      |....+++|||+|||++ +++++|+++|++||.|..+.+..+   ++||||+|.+.++|..||+.|++ .|+||.|+|.|
T Consensus         9 p~~~~~~~l~V~nLp~~-~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~   87 (95)
T d1x4aa1           9 PAGNNDCRIYVGNLPPD-IRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEF   87 (95)
T ss_dssp             CCCCCSSEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCCCCEEEEECCCCC-CCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            34455789999999995 999999999999999999998764   47999999999999999999999 89999999999


Q ss_pred             ecCCC
Q 048615          247 ANRDS  251 (634)
Q Consensus       247 ak~~~  251 (634)
                      ++..+
T Consensus        88 a~~~r   92 (95)
T d1x4aa1          88 PRSGR   92 (95)
T ss_dssp             CCCCC
T ss_pred             ccCCC
Confidence            98654

>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=99.62  E-value=2.6e-16  Score=137.80  Aligned_cols=76  Identities=20%  Similarity=0.310  Sum_probs=71.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      .+++|||+|||++ +++++|+++|++||.|..|.|...++||||+|.+.++|.+|++.||| .|.||.|+|.|+....
T Consensus         9 ~~~~l~V~nLp~~-~t~~~L~~~F~~fG~I~~v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~   85 (111)
T d1whxa_           9 SKTVILAKNLPAG-TLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGV   85 (111)
T ss_dssp             EEEEEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTT
T ss_pred             CCCEEEEECCCCC-CCHHHHHhhhhccCCccEEEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCc
Confidence            3689999999995 99999999999999999999999999999999999999999999999 8999999999997543

>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=99.62  E-value=1.1e-15  Score=132.90  Aligned_cols=78  Identities=23%  Similarity=0.434  Sum_probs=70.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak  248 (634)
                      ..++|||+|||+. +++++|+++|++||.|.+|+|+++      ++||||+|.+.++|.+|++.+++.|+||.|+|.|+.
T Consensus         9 ~~~~lfV~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a~   87 (103)
T d2cqda1           9 TFTKIFVGGLPYH-TTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAY   87 (103)
T ss_dssp             SSSEEEEECCCSS-CCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEEST
T ss_pred             CCcEEEEeCCCCc-CcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcC
Confidence            3578999999995 999999999999999999999875      369999999999999999999889999999999997


Q ss_pred             CCCCC
Q 048615          249 RDSIP  253 (634)
Q Consensus       249 ~~~~~  253 (634)
                      ....+
T Consensus        88 ~~~~p   92 (103)
T d2cqda1          88 LGAKP   92 (103)
T ss_dssp             TTCCC
T ss_pred             CCCCC
Confidence            65443

>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=99.62  E-value=7.1e-16  Score=130.76  Aligned_cols=76  Identities=25%  Similarity=0.368  Sum_probs=69.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ..++|||+|||++ +++++|+++|++||.|.+|.|+.++    +||||+|.+.++|..|++.++| .|+|+.|+|.||++
T Consensus         7 ~~~tl~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~   85 (90)
T d2cqia1           7 QPRTLYVGNLSRD-VTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   85 (90)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            3579999999995 9999999999999999999998764    5999999999999999999999 89999999999975


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus        86 ~~   87 (90)
T d2cqia1          86 PS   87 (90)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>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=99.62  E-value=3.6e-16  Score=129.53  Aligned_cols=73  Identities=23%  Similarity=0.324  Sum_probs=68.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .+++|||+|++   +++++|+++|++||.|.+|++.++++||||+|.+.++|..|+..|+| .++|+.|+|.|++++
T Consensus         4 ~~~ti~V~~~~---~te~~L~~~F~~~G~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   77 (79)
T d2bz2a1           4 KGNTLYVYGED---MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   77 (79)
T ss_dssp             CCCEEEEECSS---CCHHHHHHHHSTTCCCSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCSS
T ss_pred             CCCEEEEECCC---CCHHHHHHHHhccCccceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            36899999984   69999999999999999999999999999999999999999999999 899999999999754

>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=99.61  E-value=4e-16  Score=132.02  Aligned_cols=75  Identities=31%  Similarity=0.439  Sum_probs=69.7

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++.+++ .|+|+.|+|.||+
T Consensus         5 ~~tlfV~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~   83 (89)
T d2cqba1           5 KRVLYVGGLAEE-VDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   83 (89)
T ss_dssp             CSCEEEESCCSS-CCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CcEEEEeCCCCc-CCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            579999999995 9999999999999999999998754      6999999999999999999999 8999999999998


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +.+
T Consensus        84 p~~   86 (89)
T d2cqba1          84 PMR   86 (89)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>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=99.61  E-value=1.1e-15  Score=129.59  Aligned_cols=74  Identities=26%  Similarity=0.455  Sum_probs=69.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..|+|+.++      |||||+|.+.++|.+|++.|+| .|+||.|+|.||+
T Consensus         8 ~~~i~V~nLp~~-~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1           8 NATIRVTNLSED-TRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             SEEEEEESCCTT-CCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            579999999995 9999999999999999999999864      4999999999999999999999 8999999999998


Q ss_pred             CC
Q 048615          249 RD  250 (634)
Q Consensus       249 ~~  250 (634)
                      +.
T Consensus        87 p~   88 (90)
T d2cq0a1          87 PS   88 (90)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.61  E-value=8.4e-16  Score=131.48  Aligned_cols=77  Identities=22%  Similarity=0.484  Sum_probs=69.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcC-CC-ccCCeEEEE
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSP-DA-VMGNRFIKL  244 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~l-ng-~l~gR~IkV  244 (634)
                      ...++|||+|||++ +++++|+.+|++||.|.+|+|+++       +|||||+|.+.++|.+|+..| ++ .|+||+|+|
T Consensus         6 ~~~~~l~V~nLp~~-~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V   84 (94)
T d2cpha1           6 QTTSKILVRNIPFQ-ANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   84 (94)
T ss_dssp             SCCCCEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEE
Confidence            34679999999995 999999999999999999999764       369999999999999999998 78 799999999


Q ss_pred             EeecCCC
Q 048615          245 WWANRDS  251 (634)
Q Consensus       245 ~wak~~~  251 (634)
                      .||+.+.
T Consensus        85 ~~A~~~~   91 (94)
T d2cpha1          85 EWADSEV   91 (94)
T ss_dssp             EECCCCC
T ss_pred             EEcCCCC
Confidence            9998654

>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=99.60  E-value=9.6e-16  Score=129.48  Aligned_cols=75  Identities=20%  Similarity=0.354  Sum_probs=68.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.+.++|.+|+..++| .|+||.|+|.||
T Consensus         6 ~~~~l~V~nL~~~-~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_           6 EGWILFVTSIHEE-AQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             -CEEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            3579999999995 9999999999999999999998864      5999999999999999999999 899999999999


Q ss_pred             cCC
Q 048615          248 NRD  250 (634)
Q Consensus       248 k~~  250 (634)
                      .+.
T Consensus        85 ~~k   87 (88)
T d1rk8a_          85 FVK   87 (88)
T ss_dssp             EEC
T ss_pred             cCC
Confidence            743

>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=99.60  E-value=1.2e-15  Score=127.44  Aligned_cols=75  Identities=21%  Similarity=0.354  Sum_probs=68.6

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-cc-CCeEEEEEeecC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VM-GNRFIKLWWANR  249 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l-~gR~IkV~wak~  249 (634)
                      +++++|||+|||.+ +++++|+++|++||.|..|++++++ +||||+|.+.++|..|++.|+| .| +|+.|+|.||+.
T Consensus         6 pP~~tl~V~nLp~~-~t~~~l~~~f~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~akk   83 (83)
T d2b0ga1           6 PPNQILFLTNLPEE-TNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAKK   83 (83)
T ss_dssp             SCCSEEEEESCCTT-CCHHHHHHHHTTSTTEEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECCC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHhhhccCccEEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEecC
Confidence            45789999999995 9999999999999999999998865 7999999999999999999999 56 679999999973

>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=99.60  E-value=1.6e-15  Score=138.49  Aligned_cols=77  Identities=23%  Similarity=0.359  Sum_probs=70.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|++||.|.+|+|++++      |||||+|.+.++|..||+.|+| .|+||.|+|.|+
T Consensus        41 ~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          41 VLRNLMVNYIPTT-VDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTSEEEEESCSTT-CCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3579999999996 9999999999999999999998753      5999999999999999999999 899999999999


Q ss_pred             cCCCC
Q 048615          248 NRDSI  252 (634)
Q Consensus       248 k~~~~  252 (634)
                      +....
T Consensus       120 ~~~~~  124 (139)
T d1u6fa1         120 ASGHQ  124 (139)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            76544

>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=99.60  E-value=1.4e-15  Score=128.70  Aligned_cols=75  Identities=20%  Similarity=0.380  Sum_probs=69.3

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      ..+|||+|||++ +++++|+++|++||.|..|+|+.+    ++||||+|.+.++|.+|++.|+| .|+||.|+|.|+++.
T Consensus         8 ~~~l~V~nLp~~-~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2           8 VGNIFIKNLDKS-IDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             TTEEEEESCCSS-CCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            358999999995 999999999999999999999886    47999999999999999999999 899999999999854


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        87 ~   87 (89)
T d1cvja2          87 K   87 (89)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.59  E-value=1e-15  Score=133.75  Aligned_cols=76  Identities=21%  Similarity=0.341  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      +++|||+|||++.+++++|+++|++||.|..|.|++++ +||||+|.+.++|.+|++.|+| .|+||.|+|.|++...
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~~   79 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQN   79 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCCC
Confidence            57999999976459999999999999999999999875 7999999999999999999999 8999999999997543

>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=99.59  E-value=2.6e-15  Score=128.08  Aligned_cols=74  Identities=28%  Similarity=0.444  Sum_probs=69.2

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      .++|||+|||++ +++++|+++|++||.|..|+|+.++    +||||+|.++++|.+|+..|++ .|+||.|+|.||++.
T Consensus        11 ~~~l~v~nLp~~-~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~r   89 (93)
T d2cq3a1          11 PKRLHVSNIPFR-FRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR   89 (93)
T ss_dssp             CCEEEEESCCTT-CCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSS
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCcC
Confidence            579999999995 9999999999999999999998864    6999999999999999999999 899999999999854

>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=99.59  E-value=1e-15  Score=128.10  Aligned_cols=72  Identities=25%  Similarity=0.410  Sum_probs=66.1

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      |||+|||++ +++++|+++|++||.|.+|.|+++         +|||||+|.+.++|.+|++.++| .|+||.|+|.|++
T Consensus         1 LfV~nLp~~-~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFS-TTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTT-CCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEEcCCCCC-CCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            799999995 999999999999999999999864         35899999999999999999999 8999999999996


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        80 ~~~   82 (85)
T d2cpfa1          80 RAT   82 (85)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            443

>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=99.59  E-value=1.7e-15  Score=130.23  Aligned_cols=76  Identities=21%  Similarity=0.326  Sum_probs=70.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEeecCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGN--RFIKLWWANRDS  251 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~wak~~~  251 (634)
                      +.++|||+|||++ +++++|+++|++||.|..|++.++++||||+|.+.++|..|++.|++ .|+|  ++|+|.|++++.
T Consensus        16 Ps~tl~V~nLp~~-~t~~~l~~~f~~~G~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~~   94 (97)
T d1whya_          16 PTTRLWVGGLGPN-TSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             CCSCEEEECCCSS-CCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCC
T ss_pred             CCCEEEEcCCCCC-CCHHHHHHHHHhhcccceEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCCC
Confidence            4589999999995 99999999999999999999999999999999999999999999999 6765  689999998543

>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=99.59  E-value=1.5e-15  Score=127.45  Aligned_cols=75  Identities=25%  Similarity=0.333  Sum_probs=70.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      .++|||+|||++ +++++|+++|++||.|..+.+...++||||+|.++++|..|+..|+| .|+||.|+|.|++|..
T Consensus         8 ~k~l~V~nLp~~-~te~~l~~~F~~~g~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~   83 (86)
T d2cpda1           8 VKILYVRNLMLS-TSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   83 (86)
T ss_dssp             CCEEEEESCCTT-CCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             CCEEEEcCCCCC-CCHHHHHHhhcccceeeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCC
Confidence            479999999995 99999999999999999999989999999999999999999999999 8999999999998554

>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=99.58  E-value=1.3e-15  Score=128.81  Aligned_cols=75  Identities=16%  Similarity=0.278  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      .++|||+|||++ +++++|+++|++|| +..+.+...++||||+|.+.++|.+|++.|++ .|+||.|+|.|++.+..
T Consensus         5 s~~i~V~nLp~~-~t~~~l~~lF~~~G-~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~~~   80 (88)
T d1wg1a_           5 SSGILVKNLPQD-SNCQEVHDLLKDYD-LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDAL   80 (88)
T ss_dssp             CCCEEEESCCSS-CCHHHHHHHTCSSC-CCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCCC
T ss_pred             CCEEEEeCCCCc-cChHHHHHHHHhcC-ceeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCCC
Confidence            479999999996 99999999999999 45567778889999999999999999999999 79999999999975543

>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=99.58  E-value=2.6e-15  Score=132.28  Aligned_cols=74  Identities=23%  Similarity=0.400  Sum_probs=68.9

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ..+++|||+|||++ +++++|+++|++||.|.+|++..+   +|||||+|.+.++|..|++.|+| .|+||.|+|.|+.
T Consensus         5 ~~~r~l~V~nLp~~-~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   82 (114)
T d2f9da1           5 EVNRILYIRNLPYK-ITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYN   82 (114)
T ss_dssp             TCCSEEEEESCCTT-CCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            34789999999995 999999999999999999999875   57999999999999999999999 8999999999985

>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=99.58  E-value=2.2e-15  Score=129.97  Aligned_cols=77  Identities=16%  Similarity=0.204  Sum_probs=70.3

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      +..++|||+|||++ +++++|+++|++||.|..|.|.. ++||||+|.+.++|.+||+.||+ .|+||.|+|.|++....
T Consensus        13 ~~~~~i~V~Nlp~~-~~~~~L~~~F~~~G~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~~~   90 (98)
T d1wg4a_          13 RSDFRVLVSGLPPS-GSWQDLKDHMREAGDVCYADVQK-DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVYPE   90 (98)
T ss_dssp             SCSCEEEEECCCSS-CCHHHHHHHHTTSSCEEEEEEET-TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEECC
T ss_pred             CCCCEEEEECCCCC-CCHHHHHHHHHhhcccccccccc-cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecCCC
Confidence            44679999999995 99999999999999999999875 58999999999999999999999 89999999999975543

>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=99.58  E-value=2.5e-15  Score=126.68  Aligned_cols=77  Identities=18%  Similarity=0.298  Sum_probs=70.5

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD--A-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~IkV~wak~~  250 (634)
                      ++.++|||+|||++ +++++|+++|++||.|.+|++.++++||||+|.+.++|.+|+..++  + .++||+|+|.|++.+
T Consensus         6 ~Ps~~l~V~nLp~~-~t~~~L~~~f~~~G~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~~   84 (88)
T d2cq1a1           6 APSRVLHIRKLPGE-VTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   84 (88)
T ss_dssp             SCCSEEEEESCCTT-CCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHhcccccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCCC
Confidence            45689999999995 9999999999999999999999999999999999999999998764  4 799999999999754


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        85 ~   85 (88)
T d2cq1a1          85 E   85 (88)
T ss_dssp             S
T ss_pred             C
Confidence            3

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=2.1e-15  Score=126.64  Aligned_cols=73  Identities=15%  Similarity=0.291  Sum_probs=68.0

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +|||+|||+. +++++|+++|++||+|.+|+|++|+      +||||+|.+.++|..|++.+++ .|+||.|+|.||++.
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~~~   81 (85)
T d2u2fa_           3 KLFIGGLPNY-LNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CEEEETCCSS-CCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             EEEEECCCCC-CCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            7999999995 9999999999999999999998763      6999999999999999999999 899999999999754


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        82 ~   82 (85)
T d2u2fa_          82 A   82 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.57  E-value=1.8e-15  Score=131.34  Aligned_cols=76  Identities=24%  Similarity=0.378  Sum_probs=69.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|||+|||++ +++++|+++|++||.|.++.++.++      |||||+|.+.++|..||+.|+| .|+||.|+|.|+
T Consensus        17 ~~~~l~V~nLp~~-~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a   95 (102)
T d2cpza1          17 EGANLFIYHLPQE-FGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK   95 (102)
T ss_dssp             TTCCEEEESCCSS-CCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            3578999999995 9999999999999999999998764      5999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus        96 ~~k~   99 (102)
T d2cpza1          96 RSKN   99 (102)
T ss_dssp             CCSC
T ss_pred             CCCC
Confidence            8654

>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=99.57  E-value=6e-16  Score=128.53  Aligned_cols=74  Identities=16%  Similarity=0.227  Sum_probs=69.2

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-c-cCCeEEEEEeecCCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-V-MGNRFIKLWWANRDS  251 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~-l~gR~IkV~wak~~~  251 (634)
                      .+|||+|||++ +++++|+++|++||.|..+.+...++||||+|.+.++|.+|++.|+| . ++|+.|+|.|+.+..
T Consensus         2 n~l~V~nLp~~-~te~~L~~~F~~~G~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~   77 (80)
T d2cqha1           2 NKLYIGNLSPA-VTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   77 (80)
T ss_dssp             CCEEEECCCTT-CCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CEEEEECCCCC-CCHHHHHHHHHHhCcEEEeEEecccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcC
Confidence            37999999995 99999999999999999999999999999999999999999999998 4 999999999998654

>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=99.57  E-value=2.2e-15  Score=126.37  Aligned_cols=71  Identities=25%  Similarity=0.418  Sum_probs=65.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEe
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGN--RFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~w  246 (634)
                      +++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.++++|.+|++.||| .++|  ++|+|.|
T Consensus         6 ~~~lfV~nLp~~-~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2           6 DANLYVSGLPKT-MTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             TCEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEe
Confidence            579999999995 9999999999999999999998764      4999999999999999999999 7876  6699999


Q ss_pred             e
Q 048615          247 A  247 (634)
Q Consensus       247 a  247 (634)
                      |
T Consensus        85 A   85 (85)
T d1fxla2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            7

>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=99.57  E-value=2.3e-15  Score=127.12  Aligned_cols=74  Identities=20%  Similarity=0.351  Sum_probs=66.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC-CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN-SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d-kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|++..+ ++||||+|.+.++|++|+.  ++ .|+||.|+|.|+++...
T Consensus         5 s~~lfV~nLp~~-~te~~L~~~F~~~G~v~~v~~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k~~   80 (88)
T d1wf0a_           5 SSGVFVGRCTGD-MTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKHN   80 (88)
T ss_dssp             CCEEEEESCCSS-SCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCCC
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHHcCCceEEEEeeccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCCCC
Confidence            579999999995 999999999999999999988765 5899999999999999985  56 79999999999975443

>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=99.56  E-value=1.9e-15  Score=125.33  Aligned_cols=72  Identities=14%  Similarity=0.150  Sum_probs=66.1

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      |||||+|||++ +++++|+++|++||.|..+.++.+      ++||||+|.+.++|.+|++.|+| .++||.|+|.|++|
T Consensus         2 ~tl~v~nLp~~-~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPS-YTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTT-CCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cEEEEECCCCc-CCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            79999999995 999999999999999988877653      36999999999999999999999 89999999999975

>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=99.56  E-value=7.2e-15  Score=124.82  Aligned_cols=74  Identities=22%  Similarity=0.353  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak~  249 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+||+.++ .|+||.|.|.|+.+
T Consensus         8 ~~~lfV~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~~-~l~Gr~i~v~~a~~   85 (90)
T d2cqga1           8 TSDLIVLGLPWK-TTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRH-MIDGRWCDCKLPNS   85 (90)
T ss_dssp             CCCEEEESCCSS-CCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSCE-EETTEEEEEECCCT
T ss_pred             CCeEEEECCCCC-CCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcCC-ccCCEEeEEEeCCC
Confidence            579999999995 9999999999999999999999875      599999999999999999654 79999999999975


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus        86 k~   87 (90)
T d2cqga1          86 KQ   87 (90)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>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=99.56  E-value=3.9e-15  Score=124.70  Aligned_cols=71  Identities=28%  Similarity=0.429  Sum_probs=65.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCC--eEEEEEe
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGN--RFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~g--R~IkV~w  246 (634)
                      +++|||+|||++ +++++|+++|++||.|.+|+|++++      +||||+|.++++|.+|++.+++ .+.|  |+|+|.|
T Consensus         6 ~t~lfV~nlp~~-~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2           6 DTNLYVTNLPRT-ITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             TCEEEEESCCTT-CCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCEEEEeCCCCC-CCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            578999999995 9999999999999999999999865      4999999999999999999999 6655  9999999


Q ss_pred             e
Q 048615          247 A  247 (634)
Q Consensus       247 a  247 (634)
                      |
T Consensus        85 A   85 (85)
T d1b7fa2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            7

>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=99.55  E-value=4.4e-15  Score=123.68  Aligned_cols=69  Identities=25%  Similarity=0.350  Sum_probs=64.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      +.++|||+|||++ +++++|+++|++||.|.+|.|+.++      +||||+|.+.++|.+|++.|++ .|+||.|+|
T Consensus         8 ~~~~l~V~nL~~~-~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           8 PNCCLGVFGLSLY-TTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGGCEEEESCCSS-CCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            4689999999995 9999999999999999999998764      4999999999999999999999 899999987

>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=99.55  E-value=3.6e-15  Score=123.10  Aligned_cols=70  Identities=19%  Similarity=0.314  Sum_probs=66.1

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +|||+|||++ +++++|+++|++||.|.+|+|..++     +||||+|.+.++|.+|++.++| .++||.|+|.|+.
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 KLLVSNLDFG-VSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTT-CCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCC-CCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            6999999995 9999999999999999999998764     5999999999999999999999 8999999999985

>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=99.55  E-value=3.9e-15  Score=125.84  Aligned_cols=75  Identities=21%  Similarity=0.400  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..|.++.+      +|||||+|.++++|..|++.|+| .|+||.|+|.|+.
T Consensus         5 ~~kifV~nLp~~-~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~   83 (90)
T d1x5sa1           5 EGKLFVGGLSFD-TNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   83 (90)
T ss_dssp             CSEEEEESCCTT-CCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCEEEEECCCCc-CCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            478999999995 999999999999999999988774      36999999999999999999999 8999999999997


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        84 ~~~   86 (90)
T d1x5sa1          84 KSS   86 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            554

>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=99.55  E-value=4.1e-15  Score=127.36  Aligned_cols=77  Identities=23%  Similarity=0.342  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCC-EEEEEEecC-------CCeEEEEeCCHHHHHHHHHcCCC---ccCCeEEEE
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGE-VVDIYIPLN-------SERAFVQFSKREEAEAALKSPDA---VMGNRFIKL  244 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~-I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~lng---~l~gR~IkV  244 (634)
                      ||+|||+|||.+ +++++|+++|++||. |..|.|+++       +|||||+|.++++|..|++.|++   .++|+.|+|
T Consensus         1 n~rLyV~nLp~~-~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V   79 (96)
T d2disa1           1 NCRLFIGGIPKM-KKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   79 (96)
T ss_dssp             SEEEEEECCCTT-SCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCEEEEcCCCCc-CCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEE
Confidence            589999999995 999999999999996 999998764       36999999999999999999975   478999999


Q ss_pred             EeecCCCCC
Q 048615          245 WWANRDSIP  253 (634)
Q Consensus       245 ~wak~~~~~  253 (634)
                      .||++...+
T Consensus        80 ~~A~p~~~~   88 (96)
T d2disa1          80 DWAEPEIDV   88 (96)
T ss_dssp             EESCSSCST
T ss_pred             EEcCCCCCC
Confidence            999865543

>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=99.55  E-value=5.5e-15  Score=127.67  Aligned_cols=77  Identities=19%  Similarity=0.321  Sum_probs=70.0

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHc--CCC-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKS--PDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~--lng-~l~gR~IkV~wak~~  250 (634)
                      ..+++|||+|||.+.+++++|.++|++||.|.+|.+.++++||||+|.+.++|..|++.  +++ .++||.|+|.|+++.
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~~   95 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKY   95 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECSC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCCc
Confidence            44689999999985589999999999999999999999999999999999999999984  566 799999999999754

>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=99.54  E-value=1.3e-14  Score=125.69  Aligned_cols=77  Identities=21%  Similarity=0.358  Sum_probs=66.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      +.++|||+|||++ +++++|+++|++|| |+.+.++.++       +||||+|.+.++|++|+ .+++ .|+||.|+|.|
T Consensus        14 p~~~v~V~nLp~~-~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~   90 (104)
T d1wi8a_          14 PPYTAFLGNLPYD-VTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDV   90 (104)
T ss_dssp             SCEEEEEESCCSS-CCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCc-CCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEE
Confidence            3489999999995 99999999999999 7888877642       59999999999998776 5888 89999999999


Q ss_pred             ecCCCCCC
Q 048615          247 ANRDSIPD  254 (634)
Q Consensus       247 ak~~~~~~  254 (634)
                      +++.....
T Consensus        91 a~~~~~~~   98 (104)
T d1wi8a_          91 ADQAQDKD   98 (104)
T ss_dssp             CCCCCCCC
T ss_pred             CCCCCCCC
Confidence            98765543

>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=99.54  E-value=8.9e-15  Score=119.97  Aligned_cols=71  Identities=15%  Similarity=0.264  Sum_probs=66.6

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCC
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDS  251 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~  251 (634)
                      |||+|||++ +++++|+++|++|| +..+.+.+.++||||+|.+.++|.+|+..||| .++||.|+|.|++.+.
T Consensus         1 i~V~nLp~~-~t~~~l~~~F~~~g-~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d~   72 (75)
T d1wi6a1           1 ILIRGLPGD-VTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTDA   72 (75)
T ss_dssp             EEEECCCTT-CCHHHHHHHTTTSC-EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCSTT
T ss_pred             CEEeCCCCc-CCHHHHHHHHhccc-ccceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCCC
Confidence            799999996 99999999999999 78888889999999999999999999999999 8999999999997553

>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=99.54  E-value=4.6e-15  Score=123.50  Aligned_cols=72  Identities=22%  Similarity=0.410  Sum_probs=64.7

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEE-EEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDI-YIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v-~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      |||+|||++ +++++|+++|++||.|..+ +|+++      ++||||+|.+.++|.+|++.++| .|+||+|+|.||.+.
T Consensus         1 lfV~nLp~~-~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k   79 (83)
T d1x5ta1           1 IFIGNLDPE-IDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKK   79 (83)
T ss_dssp             EEEECCCTT-CCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCC
T ss_pred             CEEcCCCCc-CcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCC
Confidence            799999995 9999999999999999765 66654      36999999999999999999999 899999999999754


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        80 ~   80 (83)
T d1x5ta1          80 D   80 (83)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=7.1e-15  Score=123.75  Aligned_cols=74  Identities=24%  Similarity=0.307  Sum_probs=66.8

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec--CCCeEEEEeCCHHHHHHHHHcCCC-cc-CCeEEEEEeecC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL--NSERAFVQFSKREEAEAALKSPDA-VM-GNRFIKLWWANR  249 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~--dkg~AFV~F~s~e~A~~Ai~~lng-~l-~gR~IkV~wak~  249 (634)
                      ++++|||+|||++ +++++|+++|++||.|..+.+..  .++||||+|.+.++|.+|+..|+| .| +||.|+|.|++.
T Consensus         9 Ps~tL~V~NLp~~-~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2           9 PSATLHLSNIPPS-VSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             SCSEEEEECCCTT-CCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            4679999999996 99999999999999999887765  457999999999999999999999 56 689999999974

>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=99.54  E-value=9.5e-15  Score=123.78  Aligned_cols=76  Identities=18%  Similarity=0.279  Sum_probs=69.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcC--CC-ccCCeEEEEEeecCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSP--DA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~l--ng-~l~gR~IkV~wak~~  250 (634)
                      +.++|||+|||...+++++|.++|++||.|.+|.+.+++++|||+|.+.++|..|++.+  ++ .++||+|+|.|++..
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~~~   85 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   85 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCCc
Confidence            46899999999855789999999999999999999999999999999999999999966  45 699999999999744

>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=99.53  E-value=3.6e-15  Score=129.51  Aligned_cols=75  Identities=24%  Similarity=0.443  Sum_probs=68.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++.|++ .|+||.|+|.|+.
T Consensus         8 ~rtl~V~nLp~~-~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~   86 (104)
T d1p1ta_           8 LRSVFVGNIPYE-ATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HSCEEEESCCTT-SCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             CCEEEEECCCCc-CCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            478999999995 9999999999999999999998754      5999999999999999999999 8999999999987


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        87 ~~~   89 (104)
T d1p1ta_          87 SEK   89 (104)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            543

>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=99.53  E-value=7.1e-15  Score=124.73  Aligned_cols=75  Identities=27%  Similarity=0.498  Sum_probs=67.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHH----HhhccCCCEEEEEEecC---CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          175 ALRTLFVNNVPLKSNRREALL----SHFQKFGEVVDIYIPLN---SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~----~~FskfG~I~~v~v~~d---kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ++++|||+|||++ +++++|+    .+|++||.|.+|++...   ++||||+|.+.++|.+|++.++| .++|+.|+|.|
T Consensus         2 P~~tl~V~nLp~~-~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~   80 (91)
T d1nu4a_           2 PNHTIYINNLNEK-IKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY   80 (91)
T ss_dssp             CCSEEEEESCCTT-SCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            4689999999995 9998886    46899999999998763   68999999999999999999999 79999999999


Q ss_pred             ecCC
Q 048615          247 ANRD  250 (634)
Q Consensus       247 ak~~  250 (634)
                      |+.+
T Consensus        81 ak~~   84 (91)
T d1nu4a_          81 AKTD   84 (91)
T ss_dssp             CSSC
T ss_pred             eCCC
Confidence            9854

>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=99.53  E-value=1.1e-14  Score=126.85  Aligned_cols=74  Identities=22%  Similarity=0.403  Sum_probs=66.9

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..+.|+.+      ++||||+|.+.++|.+|++ +++ .|+||.|.|.||+
T Consensus        20 ~~~lfVgnLp~~-~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          20 FRKLFIGGLSFE-TTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             HTEEEEECCTTC-CCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECCS
T ss_pred             CCEEEEeCCCCc-CCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEECc
Confidence            479999999995 999999999999999999999875      3699999999999999996 566 8999999999998


Q ss_pred             CCC
Q 048615          249 RDS  251 (634)
Q Consensus       249 ~~~  251 (634)
                      +..
T Consensus        98 ~ke  100 (103)
T d1x4ba1          98 ARE  100 (103)
T ss_dssp             SCC
T ss_pred             ccC
Confidence            543

>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=99.53  E-value=1.3e-14  Score=124.03  Aligned_cols=75  Identities=27%  Similarity=0.402  Sum_probs=67.3

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCC------C-ccCCeE
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPD------A-VMGNRF  241 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~ln------g-~l~gR~  241 (634)
                      .+++|||+|||++ +++++|+++|++||.|..+.++.+      +|||||+|.++++|.+|++.++      | .|+||.
T Consensus         7 ~~~tlfV~nLp~~-~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~   85 (98)
T d1x4ha1           7 EGKTVFIRNLSFD-SEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQ   85 (98)
T ss_dssp             CCCCEEEESCCTT-CCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCE
T ss_pred             CCCEEEEcCCCCc-CCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEE
Confidence            3689999999995 999999999999999999998875      3699999999999999999876      4 588999


Q ss_pred             EEEEeecCC
Q 048615          242 IKLWWANRD  250 (634)
Q Consensus       242 IkV~wak~~  250 (634)
                      |+|.|+++.
T Consensus        86 l~v~~a~~k   94 (98)
T d1x4ha1          86 LKVDLAVTR   94 (98)
T ss_dssp             EEEECCCCC
T ss_pred             EEEEECCCC
Confidence            999999753

>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=99.53  E-value=2.8e-14  Score=123.98  Aligned_cols=78  Identities=13%  Similarity=0.204  Sum_probs=70.8

Q ss_pred             CCCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCC--C-ccCCeEEEEEeecCC
Q 048615          174 KALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPD--A-VMGNRFIKLWWANRD  250 (634)
Q Consensus       174 ~~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~ln--g-~l~gR~IkV~wak~~  250 (634)
                      ++.++|||+|||++ +++++|+.+|++||.|.+|++.++++||||+|.+.++|..|+..++  + .++|++|+|.|++.+
T Consensus        13 ~ps~~l~v~nlp~~-~te~~l~~~F~~fG~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~   91 (104)
T d1wexa_          13 SVSPVVHVRGLCES-VVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSK   91 (104)
T ss_dssp             CCCSEEEEESCCSS-CCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSS
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHhhhhcccceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCC
Confidence            34679999999995 9999999999999999999999999999999999999999999874  4 689999999999765


Q ss_pred             CC
Q 048615          251 SI  252 (634)
Q Consensus       251 ~~  252 (634)
                      ..
T Consensus        92 ~~   93 (104)
T d1wexa_          92 RI   93 (104)
T ss_dssp             SC
T ss_pred             cc
Confidence            43

>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=99.53  E-value=9.4e-15  Score=122.73  Aligned_cols=72  Identities=29%  Similarity=0.480  Sum_probs=64.2

Q ss_pred             CCEEEEeCCCCCCCC-HHHHHHhhccCCCEEEEEEecC-------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          176 LRTLFVNNVPLKSNR-REALLSHFQKFGEVVDIYIPLN-------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       176 ~~tLfVgnLp~d~~t-e~~L~~~FskfG~I~~v~v~~d-------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      .++|||+|||++ ++ +++|+++|++||.|.+|+|+.+       +|||||+|.+.++|.+|++ +++ .|+||.|+|.|
T Consensus         4 ~~~l~V~nLp~~-~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~   81 (86)
T d2ghpa3           4 GREIMIRNLSTE-LLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSL   81 (86)
T ss_dssp             TTEEEEEEECTT-TCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEE
T ss_pred             CCEEEEECCCCC-cccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEE
Confidence            579999999996 65 6679999999999999998763       3599999999999999996 899 89999999999


Q ss_pred             ecC
Q 048615          247 ANR  249 (634)
Q Consensus       247 ak~  249 (634)
                      +++
T Consensus        82 a~~   84 (86)
T d2ghpa3          82 ADK   84 (86)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            974

>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=99.52  E-value=6.7e-15  Score=126.09  Aligned_cols=77  Identities=19%  Similarity=0.314  Sum_probs=68.3

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEe-cCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCCCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP-LNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRDSI  252 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~-~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~~~  252 (634)
                      ..++|||+|||++ +++++|+++|++||.|..++.. ..++||||+|.+.++|.+|++.|++ .|+||.|+|.|+.+.+.
T Consensus        15 ~~~~l~V~nL~~~-~te~~l~~~F~~~g~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k~~   93 (96)
T d1fjca_          15 AARTLLAKNLSFN-ITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             GGGEEEEESCCSS-CCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHHhcccceeeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCCCC
Confidence            3589999999995 9999999999999998877643 3457999999999999999999999 89999999999986543

>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=99.51  E-value=2.3e-15  Score=126.84  Aligned_cols=71  Identities=15%  Similarity=0.233  Sum_probs=66.2

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecCC
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANRD  250 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~~  250 (634)
                      +|||+|||++ +++++|+++|++||.|.+|+|..+ +||||+|.+.++|.+||..|+| .|+|+.|+|.|++..
T Consensus         2 rvfV~nlp~~-~~~~~l~~~F~~~G~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           2 RVVVSGLPPS-GSWQDLKDHMREAGDVCYADVYRD-GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CEEEEECCSS-CCTTHHHHHHGGGSCEEEEEECTT-SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             eEEEECCCCc-CCHHHHHHHHhhhccccccccccc-ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEecC
Confidence            6999999995 999999999999999999998765 8999999999999999999999 899999999998644

>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=99.51  E-value=2.1e-14  Score=120.21  Aligned_cols=72  Identities=26%  Similarity=0.464  Sum_probs=65.3

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|++||.|..|+|+.++      |||||+|.+.++|.+|++..+..|+||.|+|..|.
T Consensus         6 ~~~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           6 LRKLFIGGLSFE-TTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGEEEEESCCTT-CCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CcEEEEECCCCC-CCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            469999999995 9999999999999999999998864      59999999999999999864448999999998874

>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=99.51  E-value=5e-15  Score=122.19  Aligned_cols=69  Identities=20%  Similarity=0.339  Sum_probs=63.8

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      |+|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++ +++ .|+||.|+|.+|
T Consensus         1 cklfV~nLp~~-~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQ-TTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSS-CCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCc-CCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            68999999996 9999999999999999999998864      699999999999999998 576 899999999886

>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=99.49  E-value=4.5e-14  Score=116.16  Aligned_cols=70  Identities=17%  Similarity=0.304  Sum_probs=64.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      .++|||+|||++ +++++|+++|++||.|..+.+..++      +||||+|.+.++|.+|++ +++ .|+||.|+|..|
T Consensus         2 ~r~lfV~nLp~~-~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKED-TEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTT-CCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCc-CCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            479999999995 9999999999999999999998864      599999999999999996 677 899999999876

>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=99.48  E-value=1.7e-14  Score=117.34  Aligned_cols=68  Identities=21%  Similarity=0.355  Sum_probs=62.8

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +|||+|||++ +++++|+++|++||.|..+.++.++      +||||+|.+.++|.+|++ +++ .|+||.|+|.||
T Consensus         1 rlfV~nLp~~-~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVN-TTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSS-CCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCC-CCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEEC
Confidence            5999999995 9999999999999999999987754      599999999999999997 888 899999999986

>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=99.48  E-value=3e-14  Score=122.49  Aligned_cols=75  Identities=21%  Similarity=0.223  Sum_probs=65.7

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEE--------EEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVV--------DIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~--------~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      .+++|||+|||+. +++++|+++|++||.|.        .+.+..+      ++||||+|.++++|.+|++.++| .|+|
T Consensus         7 ~~~~i~V~nLp~~-~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   85 (101)
T d2cpea1           7 DNSAIYVQGLNDS-VTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   85 (101)
T ss_dssp             CCCEEEEECCCTT-CCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCc-CCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECC
Confidence            3689999999995 99999999999999985        3444443      36999999999999999999999 8999


Q ss_pred             eEEEEEeecCC
Q 048615          240 RFIKLWWANRD  250 (634)
Q Consensus       240 R~IkV~wak~~  250 (634)
                      |.|+|.|+++.
T Consensus        86 r~i~V~~a~~~   96 (101)
T d2cpea1          86 SKLKVSLARKK   96 (101)
T ss_dssp             EECEEECSSCC
T ss_pred             EEEEEEEcCCC
Confidence            99999999853

>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=99.48  E-value=2.5e-14  Score=124.72  Aligned_cols=75  Identities=15%  Similarity=0.068  Sum_probs=68.4

Q ss_pred             CCEEEEeCCCCCCC-CH----HHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSN-RR----EALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~-te----~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      .++|||+||+.+ + ++    ++|+.+|++||.|+++++.+.++||||+|.+.++|.+|+..|+| .|+|+.|+|.|+++
T Consensus         5 ~~~L~v~nl~~~-v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~~   83 (104)
T d1weya_           5 SSGLIACVANDD-VFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             CCEEEEECCCGG-GGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             CceEEEEeCCch-hcCcHHHHHHHHHHhcccccceEEEEecCCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeeccc
Confidence            579999999985 4 33    56999999999999999999999999999999999999999999 89999999999975


Q ss_pred             CC
Q 048615          250 DS  251 (634)
Q Consensus       250 ~~  251 (634)
                      ..
T Consensus        84 ~~   85 (104)
T d1weya_          84 LH   85 (104)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>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=99.48  E-value=2.7e-14  Score=123.74  Aligned_cols=72  Identities=21%  Similarity=0.236  Sum_probs=66.4

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|+.||.|.+|+|++++      |||||+|.+.++|.+|+. ++| .|+|+.|+|.+++
T Consensus        18 ~~tifV~nL~~~-~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a~   95 (101)
T d2cq4a1          18 ARTVFCMQLAAR-IRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQASQ   95 (101)
T ss_dssp             HTEEEEESCCTT-CCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEHH
T ss_pred             CCEEEEECCCCC-CCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECC
Confidence            479999999995 9999999999999999999999863      599999999999999995 899 8999999999985


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      +
T Consensus        96 ~   96 (101)
T d2cq4a1          96 A   96 (101)
T ss_dssp             H
T ss_pred             C
Confidence            3

>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=99.48  E-value=1.5e-14  Score=125.13  Aligned_cols=74  Identities=19%  Similarity=0.254  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ..++|||+|||++ +++++|+++|++||.|..+.+..+.     +||||+|.+.++|.+|++.||| .|.||+++|.|++
T Consensus        17 ~~~~lfV~nLp~~-~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          17 DPTNLYISNLPLS-MDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             CTTEEEEESCCTT-CCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            3579999999995 9999999999999999999988763     5999999999999999999999 8999999988875


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      |
T Consensus        96 P   96 (101)
T d1x5oa1          96 P   96 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.47  E-value=2.2e-14  Score=117.77  Aligned_cols=69  Identities=22%  Similarity=0.364  Sum_probs=63.1

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEee
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWWA  247 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~wa  247 (634)
                      +|||+|||++ +++++|+++|++||.|.+|+|+.++      |||||+|.+.++|.+|++..+..|+|+.|.|..|
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 KIFVGGLSPD-TPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSS-CCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCC-CCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEEC
Confidence            5999999996 9999999999999999999998864      6999999999999999987656899999999765

>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=99.46  E-value=8.4e-15  Score=126.35  Aligned_cols=76  Identities=20%  Similarity=0.324  Sum_probs=68.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ++++|||+|||.+ +++++|+++|++||.|..+.+..+      ++||||+|.+.++|..|++.|+| .|+|+.|+|.|+
T Consensus        17 ps~tl~V~nLp~~-~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   95 (102)
T d2cpxa1          17 PNKVLYLKNLSPR-VTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG   95 (102)
T ss_dssp             CCSEEEEECCCTT-CCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCC-CCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            3689999999995 999999999999999998877653      47999999999999999999999 899999999999


Q ss_pred             cCCC
Q 048615          248 NRDS  251 (634)
Q Consensus       248 k~~~  251 (634)
                      ++..
T Consensus        96 k~k~   99 (102)
T d2cpxa1          96 KNKK   99 (102)
T ss_dssp             CCCS
T ss_pred             CCcc
Confidence            8644

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=4.1e-14  Score=115.80  Aligned_cols=68  Identities=24%  Similarity=0.448  Sum_probs=60.9

Q ss_pred             EEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCCccCCeEEEEEe
Q 048615          178 TLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDAVMGNRFIKLWW  246 (634)
Q Consensus       178 tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng~l~gR~IkV~w  246 (634)
                      +|||+|||++ +++++|+++|++||.|..|.|+.++      +||||+|.+.++|.+|++..+..|+||.|+|..
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 KMFIGGLSWD-TTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTT-CCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCc-CCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeE
Confidence            5999999995 9999999999999999999998753      699999999999999998533489999999864

>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=99.46  E-value=2.8e-14  Score=120.73  Aligned_cols=69  Identities=22%  Similarity=0.349  Sum_probs=63.1

Q ss_pred             CCEEEEeCCCCCCCCHHHH---HHhhccCCCEEEEEEecCC---------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEE
Q 048615          176 LRTLFVNNVPLKSNRREAL---LSHFQKFGEVVDIYIPLNS---------ERAFVQFSKREEAEAALKSPDA-VMGNRFI  242 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L---~~~FskfG~I~~v~v~~dk---------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~I  242 (634)
                      ..+|||+|||++ +++++|   +++|++||.|.+|.|++++         +||||+|.+.++|.+|++.||| .|+||.|
T Consensus         8 ~n~vyV~nLp~~-~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           8 KNLVFVVGLSQR-LADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             SSCEEEEEECTT-TCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cCEEEEECCCCc-cCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            357999999996 999999   6789999999999998764         5899999999999999999999 8999999


Q ss_pred             EEE
Q 048615          243 KLW  245 (634)
Q Consensus       243 kV~  245 (634)
                      +|+
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            985

>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=99.46  E-value=9.2e-14  Score=120.26  Aligned_cols=74  Identities=19%  Similarity=0.389  Sum_probs=64.3

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeecC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWANR  249 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak~  249 (634)
                      ..+|||+|||++ +++++|+++|..||. +.|.++.+.     +||||+|.+.++|++|++ +++ .|+||.|+|.|+++
T Consensus        15 ~~~v~v~nLp~~-~te~dl~~~F~~~~~-~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~~   91 (102)
T d1weza_          15 GHCVHMRGLPYR-ATENDIYNFFSPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNST   91 (102)
T ss_dssp             SCEEEEESCCTT-CCHHHHHHSSCSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECC
T ss_pred             CCEEEEeCCCCc-CCHHHHHHHHhccCc-ceeeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcCC
Confidence            569999999996 999999999999984 567776653     599999999999999986 788 89999999999985


Q ss_pred             CCC
Q 048615          250 DSI  252 (634)
Q Consensus       250 ~~~  252 (634)
                      ...
T Consensus        92 ~~~   94 (102)
T d1weza_          92 AGT   94 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=99.45  E-value=1e-13  Score=113.56  Aligned_cols=69  Identities=20%  Similarity=0.324  Sum_probs=63.2

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ++|||+|||++ +++++|+++|++||.|..|+|..++    +||||+|.+.++|.+|+. +++ .|+||+|.|..+
T Consensus         1 Ttv~V~nlp~~-~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKS-YNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTT-CCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCC-CCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            58999999995 9999999999999999999998875    499999999999999985 677 899999999854

>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=99.45  E-value=1.5e-14  Score=123.03  Aligned_cols=73  Identities=21%  Similarity=0.172  Sum_probs=65.5

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEec-----CCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPL-----NSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~-----dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ..++|||+|||++ +++++|+++|++||.|..+.|+.     .++||||+|.+.++|.+||+ ++| .|+||.|+|.|++
T Consensus        12 ~~~~ifV~nL~~~-~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          12 TPFNLFIGNLNPN-KSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             SSEEEEEECCCTT-SCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECCC
T ss_pred             CCcEEEEeCccCc-chHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEecC
Confidence            3579999999995 99999999999999988877754     35899999999999999996 888 8999999999997


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      .
T Consensus        90 ~   90 (91)
T d1fjeb1          90 G   90 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.44  E-value=4.6e-14  Score=123.37  Aligned_cols=75  Identities=21%  Similarity=0.249  Sum_probs=67.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCHHHHHHHHHcCCC-cc--CCeEEEEEeecCC
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN--SERAFVQFSKREEAEAALKSPDA-VM--GNRFIKLWWANRD  250 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~e~A~~Ai~~lng-~l--~gR~IkV~wak~~  250 (634)
                      ..+|||+|||+. +++++|+++|++||.|.+|.|..+  ++||||+|.+.++|..|+..++| .|  .++.|+|.|+++.
T Consensus         7 ~~~v~V~NL~~~-vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~   85 (108)
T d2adba1           7 VLRIIVENLFYP-VTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT   85 (108)
T ss_dssp             EEEEESCSCCST-THHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSC
T ss_pred             eEEEEEeCcCCC-CCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCc
Confidence            468999999995 999999999999999999999875  46999999999999999999999 45  5899999999765


Q ss_pred             C
Q 048615          251 S  251 (634)
Q Consensus       251 ~  251 (634)
                      .
T Consensus        86 ~   86 (108)
T d2adba1          86 S   86 (108)
T ss_dssp             S
T ss_pred             c
Confidence            4

>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=99.43  E-value=1.8e-13  Score=114.60  Aligned_cols=71  Identities=14%  Similarity=0.279  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      .++|||+|||++ +++++|+++|+.||.|..|+|..++     |||||+|.+.++|.+|++ +++ .++||.|+|.|.+
T Consensus         6 ~rtvfV~nlp~~-~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           6 NRSVYIKGFPTD-ATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   82 (85)
T ss_dssp             TTEEEEECCCTT-CCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEGG
T ss_pred             cCEEEEECCCCC-CCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEcC
Confidence            479999999995 9999999999999999999998764     599999999999999996 577 8999999999974

>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=99.43  E-value=3.9e-13  Score=116.53  Aligned_cols=77  Identities=25%  Similarity=0.374  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecC------CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLN------SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~d------kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ...+|||+|||++ +++++|+++|..||.|..+.++.+      ++||||+|.++++|.+|++ +++ .|+||.|+|.++
T Consensus        14 ~~~~v~v~nLP~~-~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~   91 (104)
T d1wg5a_          14 NDGFVRLRGLPFG-CSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKS   91 (104)
T ss_dssp             CCCEEEEESCCTT-CCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEE
T ss_pred             CCcEEEEeCCCCC-CCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEEC
Confidence            3568999999995 999999999999999987555443      3699999999999999996 777 899999999999


Q ss_pred             cCCCCC
Q 048615          248 NRDSIP  253 (634)
Q Consensus       248 k~~~~~  253 (634)
                      ++....
T Consensus        92 ~~~~~~   97 (104)
T d1wg5a_          92 SRAEVR   97 (104)
T ss_dssp             CTTTSC
T ss_pred             CHHHhc
Confidence            866543

>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=99.37  E-value=1.4e-13  Score=111.19  Aligned_cols=64  Identities=20%  Similarity=0.346  Sum_probs=59.5

Q ss_pred             EEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC------CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEE
Q 048615          179 LFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS------ERAFVQFSKREEAEAALKSPDA-VMGNRFIK  243 (634)
Q Consensus       179 LfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk------g~AFV~F~s~e~A~~Ai~~lng-~l~gR~Ik  243 (634)
                      |||+|||++ +++++|+++|++||.|..+++.+++      +||||+|.+.++|.+|++.||| .|+||.||
T Consensus         1 lyV~nLp~~-~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPG-TTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTT-CCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCc-CCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            799999995 9999999999999999999988753      6999999999999999999999 89998775

>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=99.37  E-value=3.8e-13  Score=112.34  Aligned_cols=72  Identities=25%  Similarity=0.409  Sum_probs=63.1

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEE-EEEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVD-IYIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~-v~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|+.||.|.. +.+..+     ++||||+|.+.++|.+|++.+++ .|+||+|+|.++
T Consensus         8 ~~~~l~v~nLp~~-~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           8 GPTIIKVQNMPFT-VSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SSEEEEEESCCTT-CCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCC-CCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            3578999999995 999999999999999875 344443     26999999999999999999999 899999999985

>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=99.33  E-value=1.5e-12  Score=111.40  Aligned_cols=76  Identities=20%  Similarity=0.380  Sum_probs=69.2

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||.+++ +++|+++|.+||+|.+|.+..++             ++|||+|.++.+|++|+.  +|..|.|
T Consensus        17 ~~~~l~v-~nL~~~~t-e~~L~~~F~~fG~i~~v~i~~~k-------------g~afV~f~~~~~A~~Ai~~l~~~~i~g   81 (96)
T d1x4ga1          17 KNCTVYC-GGIASGLT-DQLMRQTFSPFGQIMEIRVFPEK-------------GYSFVRFSTHESAAHAIVSVNGTTIEG   81 (96)
T ss_dssp             SCCEEEE-ECCSSCCC-HHHHHHHHHHHSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEE-cCCCCCCC-HHHHHHHHHHhCCceEEEEEecc-------------eEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3578999 89999997 99999999999999999998876             799999999999999984  6999999


Q ss_pred             ceeEEEEeCCCCC
Q 048615          541 HDLQFTWLMPSSS  553 (634)
Q Consensus       541 ~~l~l~W~~~~~~  553 (634)
                      +.|+++|.++.++
T Consensus        82 ~~l~v~~ak~~p~   94 (96)
T d1x4ga1          82 HVVKCYWGKESPD   94 (96)
T ss_dssp             EECEEECCCCCCS
T ss_pred             EEEEEEEcCCCCC
Confidence            9999999887654

>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=99.29  E-value=1.7e-12  Score=112.20  Aligned_cols=66  Identities=24%  Similarity=0.338  Sum_probs=59.0

Q ss_pred             CCCCEEEEeC--CCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-c-cCCe
Q 048615          174 KALRTLFVNN--VPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-V-MGNR  240 (634)
Q Consensus       174 ~~~~tLfVgn--Lp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~-l~gR  240 (634)
                      .+.++|||.|  ||++ +++++|+++|++||.|.+|++.++++||||+|.+.++|.+|+..|+| . +.++
T Consensus        16 ~pt~~l~V~ng~L~~~-vte~~L~~~F~~~G~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i~~~~   85 (101)
T d2cq2a1          16 YATQSLVVANGGLGNG-VSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDL   85 (101)
T ss_dssp             SCCSEEEEETCTGGGT-CCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTT
T ss_pred             CCCceEEEECCCCCCC-CCHHHHHHHHHhhCcccEEeeccCccEEEEEECCHHHHHHHHHHhCCCCCCCCC
Confidence            3457899955  9995 99999999999999999999999999999999999999999999999 4 4443

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.9e-12  Score=111.74  Aligned_cols=72  Identities=13%  Similarity=0.169  Sum_probs=62.6

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEE-EEecC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDI-YIPLN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v-~v~~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ..+|||+|||++ +++++|+++|+.||.|..+ .+..+     +|||||+|.+.++|.+|++ +++ .|+||.|.|.++.
T Consensus         8 ~~~v~v~nLp~~-~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~~   85 (103)
T d2cpya1           8 KVCAHITNIPFS-ITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVVT   85 (103)
T ss_dssp             CCEEEEESCCTT-SCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEEC
T ss_pred             ceEEEEeCCCCC-CCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEECC
Confidence            468999999995 9999999999999998764 44433     4799999999999999996 788 8999999999985


Q ss_pred             C
Q 048615          249 R  249 (634)
Q Consensus       249 ~  249 (634)
                      .
T Consensus        86 ~   86 (103)
T d2cpya1          86 L   86 (103)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.27  E-value=4.4e-12  Score=110.40  Aligned_cols=74  Identities=28%  Similarity=0.411  Sum_probs=67.3

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~~g~  541 (634)
                      .|+|+| ++||.+++ +++|+++|.+||+|..|.+...+             ++|||+|.+..+|++|+  ++|..|.|+
T Consensus        10 ~~~l~V-~nLp~~~t-~~~L~~~F~~fG~I~~v~l~~~k-------------g~afV~f~~~~~A~~A~~~lng~~~~gr   74 (111)
T d1whxa_          10 KTVILA-KNLPAGTL-AAEIQETFSRFGSLGRVLLPEGG-------------ITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             EEEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCSSS-------------SCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCEEEE-ECCCCCCC-HHHHHhhhhccCCccEEEeeccC-------------ceEEEEEcCHHHHHHHHHHHcCCccCCC
Confidence            578999 89999997 89999999999999999997765             79999999999999997  469999999


Q ss_pred             eeEEEEeCCCC
Q 048615          542 DLQFTWLMPSS  552 (634)
Q Consensus       542 ~l~l~W~~~~~  552 (634)
                      .|.|.|.....
T Consensus        75 ~l~v~~a~~~~   85 (111)
T d1whxa_          75 PLYLEWAPIGV   85 (111)
T ss_dssp             BCEEEEEETTT
T ss_pred             eEEEEECCCCc
Confidence            99999986654

>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=99.25  E-value=9.6e-12  Score=104.79  Aligned_cols=82  Identities=21%  Similarity=0.361  Sum_probs=69.8

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      |..+++|+| ++||..++ +++|+++|.+||.|.+|.+..+..        .. .++|||+|.+..+|++|+.  +|..|
T Consensus         5 ~~~~~tl~V-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~d~~--------~~-~~~afV~f~~~~~A~~A~~~l~~~~~   73 (90)
T d2cqia1           5 DGQPRTLYV-GNLSRDVT-EVLILQLFSQIGPCKSCKMITEHT--------SN-DPYCFVEFYEHRDAAAALAAMNGRKI   73 (90)
T ss_dssp             SCCCCEEEE-ESCCTTCC-HHHHHHHHHHHSCEEEEEEECCCC--------SS-CCEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHHhcCCceeeeeecccC--------cc-ceeeEEEECCHHHHHHHHHHcCCCEE
Confidence            456789999 89999997 999999999999999999865431        11 2689999999999999984  69999


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|..++..
T Consensus        74 ~g~~i~v~~a~~~~~   88 (90)
T d2cqia1          74 LGKEVKVNWATTPSS   88 (90)
T ss_dssp             TTEEEEEEECCCTTC
T ss_pred             CCEEEEEEEcCCCCC
Confidence            999999999876543

>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=99.25  E-value=4.9e-12  Score=111.38  Aligned_cols=72  Identities=19%  Similarity=0.239  Sum_probs=64.1

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCH-HHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKR-EEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~-e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      ...+||+|||++ +|+++|+++|++||.|.+|.|+++++||||.|.+. ++|..|+..+++ .+.++.+.|.|+.
T Consensus        11 ~~~~fvgnL~~~-~tee~Lk~~F~~fG~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~   84 (113)
T d1owxa_          11 CLLKFSGDLDDQ-TCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEV   84 (113)
T ss_dssp             CEEEEEESCCSS-CCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEE
T ss_pred             CeEEEECCCCCC-CCHHHHHHHHHhcCChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEee
Confidence            356699999995 99999999999999999999999999999999985 789999999998 6777777777764

>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=99.24  E-value=9.4e-14  Score=117.22  Aligned_cols=70  Identities=21%  Similarity=0.385  Sum_probs=60.8

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEe-----------cCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEE
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP-----------LNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKL  244 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~-----------~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV  244 (634)
                      ++|||+|||++ +++++|+++|++||.|..+.+.           ..++||||+|.+.++|.+|+. |+| .++||.|+|
T Consensus         2 RrlyVgNLp~~-~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V   79 (90)
T d1u2fa_           2 RRLYVGNIPFG-ITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKI   79 (90)
T ss_dssp             CEEEECSCCTT-CCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCC
T ss_pred             CEEEEcCCCCc-cchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEE
Confidence            68999999995 9999999999999987655443           346799999999999999985 999 899999999


Q ss_pred             Eeec
Q 048615          245 WWAN  248 (634)
Q Consensus       245 ~wak  248 (634)
                      .+++
T Consensus        80 ~r~k   83 (90)
T d1u2fa_          80 RRPH   83 (90)
T ss_dssp             BCTT
T ss_pred             CCCC
Confidence            8655

>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=99.24  E-value=8.1e-12  Score=102.78  Aligned_cols=73  Identities=14%  Similarity=0.257  Sum_probs=64.5

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      +.++|+| +++|  ++ +++|++||.+||+|.+|.+....             ++|||+|.++.+|++|+.  +|..|.|
T Consensus         4 ~~~ti~V-~~~~--~t-e~~L~~~F~~~G~I~~v~~~~~~-------------~~afV~f~~~~~A~~Ai~~lng~~~~g   66 (79)
T d2bz2a1           4 KGNTLYV-YGED--MT-PTLLRGAFSPFGNIIDLSMDPPR-------------NCAFVTYEKMESADQAVAELNGTQVES   66 (79)
T ss_dssp             CCCEEEE-ECSS--CC-HHHHHHHHSTTCCCSCEEEETTT-------------TEEEEECSSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCEEEE-ECCC--CC-HHHHHHHHhccCccceeeeccCC-------------CEEEEEEcccHHHHHHHHHhCCCEECC
Confidence            4679999 5665  65 89999999999999999998665             799999999999999984  6999999


Q ss_pred             ceeEEEEeCCCC
Q 048615          541 HDLQFTWLMPSS  552 (634)
Q Consensus       541 ~~l~l~W~~~~~  552 (634)
                      +.|++.|.++.+
T Consensus        67 ~~l~V~~a~~~P   78 (79)
T d2bz2a1          67 VQLKVNIARKQP   78 (79)
T ss_dssp             CBCEEEECCSSC
T ss_pred             EEEEEEEecCCC
Confidence            999999998754

>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=99.22  E-value=3.6e-12  Score=111.91  Aligned_cols=72  Identities=25%  Similarity=0.415  Sum_probs=61.6

Q ss_pred             CCCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEe-cC-----CCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          175 ALRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIP-LN-----SERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       175 ~~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~-~d-----kg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      ..++|||+|||++ +++++|+++|+.||.|..+.++ .+     +|||||+|.+.++|.+|++ +++ .|+||.|.|.++
T Consensus        17 ~~~~i~v~nLp~~-~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~   94 (112)
T d1wela1          17 AGFCVYLKGLPFE-AENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI   94 (112)
T ss_dssp             CCCEEEEECCCTT-CCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCeEEEEecCCCc-CcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEc
Confidence            3579999999995 9999999999999998764333 22     2599999999999999996 788 799999999987


Q ss_pred             c
Q 048615          248 N  248 (634)
Q Consensus       248 k  248 (634)
                      .
T Consensus        95 ~   95 (112)
T d1wela1          95 T   95 (112)
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=99.21  E-value=6.7e-12  Score=105.41  Aligned_cols=77  Identities=18%  Similarity=0.198  Sum_probs=68.5

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCccCCcee
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGHDL  543 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~~g~~l  543 (634)
                      +++|+| ++||..++ +++|++||.+||+|.+|.+....            ..+|||+|.+..+|++|+.++..|.|+.|
T Consensus         5 s~~lfV-~nLp~~~t-e~~L~~~F~~~G~v~~v~~~~~~------------~gfafV~f~~~~~a~~a~~~~~~i~g~~l   70 (88)
T d1wf0a_           5 SSGVFV-GRCTGDMT-EDELREFFSQYGDVMDVFIPKPF------------RAFAFVTFADDQIAQSLCGEDLIIKGISV   70 (88)
T ss_dssp             CCEEEE-ESCCSSSC-HHHHHHHSTTTSCCCEEECCSSC------------CSCCEEECSCHHHHHHTTTCEEEETTEEE
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHHcCCceEEEEeecc------------CceEEEEECCHHHHHHHHhCCCEECCEEe
Confidence            679999 89999997 99999999999999999876432            27999999999999999998999999999


Q ss_pred             EEEEeCCCCCC
Q 048615          544 QFTWLMPSSSS  554 (634)
Q Consensus       544 ~l~W~~~~~~~  554 (634)
                      ++.|..+....
T Consensus        71 ~v~~a~~k~~~   81 (88)
T d1wf0a_          71 HISNAEPKHNS   81 (88)
T ss_dssp             EEECCCCCCCC
T ss_pred             EEEeCCCCCCC
Confidence            99998776544

>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=99.21  E-value=2.7e-12  Score=106.01  Aligned_cols=75  Identities=15%  Similarity=0.159  Sum_probs=65.6

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      .|+| +....+++.+..+|.++|.|..++.++++.++.++|||||+|.+.++| +||..|||..|.|++|+|.++.+
T Consensus         6 ~V~n-Lp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1           6 IVNY-LPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             EEEC-CCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             EEeC-CCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            4444 445567888999999999999888888888888999999999999999 99999999999999999999865

>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=99.21  E-value=1.9e-11  Score=102.31  Aligned_cols=75  Identities=20%  Similarity=0.274  Sum_probs=67.5

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~  541 (634)
                      .++|+| ++||..++ +++|+++|.+||+|.+|.+...+             ++|||+|.++.+|++|+.  +|..|.|+
T Consensus         8 ~~~l~V-~nLp~~~~-~~~l~~~F~~~G~i~~i~~~~~k-------------~~afV~f~~~~~A~~A~~~l~g~~i~g~   72 (86)
T d2cpja1           8 RSRLFV-GNLPPDIT-EEEMRKLFEKYGKAGEVFIHKDK-------------GFGFIRLETRTLAEIAKVELDNMPLRGK   72 (86)
T ss_dssp             TTEEEE-ESCCTTCC-HHHHHHHTSTTCCCSEEEEETTT-------------TEEEEECSSSHHHHHHHHHHTTCCBTTB
T ss_pred             CCEEEE-ECCCCCCC-HHHHHHHHHHhCCceEeeeeccc-------------ceEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            356999 89999997 99999999999999999998765             799999999999999995  69999999


Q ss_pred             eeEEEEeCCCCC
Q 048615          542 DLQFTWLMPSSS  553 (634)
Q Consensus       542 ~l~l~W~~~~~~  553 (634)
                      .|++.|..+.++
T Consensus        73 ~l~V~~A~~~~~   84 (86)
T d2cpja1          73 QLRVRFACHSAS   84 (86)
T ss_dssp             CCEEEESSCCSC
T ss_pred             EEEEEECCCcCC
Confidence            999999776653

>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=99.20  E-value=3.8e-11  Score=101.72  Aligned_cols=84  Identities=21%  Similarity=0.317  Sum_probs=71.7

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      -+..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..        .++ +++||+|.++.+|++|+.  +|..
T Consensus         7 ~~~~~~~l~v-~nLp~~~t-~~~L~~~F~~~G~v~~v~~~~~~~--------~~k-g~afV~f~~~~~a~~Ai~~l~~~~   75 (93)
T d2cq3a1           7 SKSTPKRLHV-SNIPFRFR-DPDLRQMFGQFGKILDVEIIFNER--------GSK-GFGFVTFENSADADRAREKLHGTV   75 (93)
T ss_dssp             CSCCCCEEEE-ESCCTTCC-HHHHHHHGGGTSCEEEEEEECCTT--------TTC-CEEEEEESCHHHHHHHHHHHTTCE
T ss_pred             CCCCCCEEEE-ECCCCCCC-HHHHHHHHhhcceeeecccccccc--------CCc-ceeEEEECCHHHHHHHHHHcCCCE
Confidence            3556888999 89999997 999999999999999999865431        122 789999999999999984  6999


Q ss_pred             cCCceeEEEEeCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~  554 (634)
                      |.|+.|++.|.++....
T Consensus        76 ~~g~~l~V~~A~~r~~t   92 (93)
T d2cq3a1          76 VEGRKIEVNNATARVMT   92 (93)
T ss_dssp             ETTEECEEEECCSSCCC
T ss_pred             ECCEEEEEEecCcCCCC
Confidence            99999999999887654

>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=99.19  E-value=4.7e-12  Score=106.72  Aligned_cols=78  Identities=14%  Similarity=0.121  Sum_probs=68.0

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....+++.+..+|.++|.|..+..++++.++.++|||||+|.+.++| +||..|||..|+||+|+|.|+.++.
T Consensus        11 i~V~n-Lp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~akp~~   89 (90)
T d2cq0a1          11 IRVTN-LSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKPST   89 (90)
T ss_dssp             EEEES-CCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSCCC
T ss_pred             EEEEC-CCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeeeCCC
Confidence            34444 556678888999999999998888888888888999999999999999 9999999999999999999997653

>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=99.17  E-value=5.2e-12  Score=104.14  Aligned_cols=69  Identities=13%  Similarity=0.103  Sum_probs=62.9

Q ss_pred             CccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           82 TAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      ....+++.+..+|.++|+|..+++++++.++.++|||||+|.+.++| .||..|||..+.||+|+|.++.
T Consensus         9 ~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           9 HPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             CTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             CCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            34567888999999999999999998888888899999999999999 9999999999999999999884

>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=99.17  E-value=5.4e-12  Score=107.15  Aligned_cols=77  Identities=19%  Similarity=0.157  Sum_probs=67.8

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .|+| +....+++.+..+|.++|.|..++.++++.++.++|||||+|.+.++| +||..|||..|+||+|+|.+|.++.
T Consensus        13 fV~n-Lp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~~~   90 (93)
T d1x5ua1          13 YVGG-LDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASAHN   90 (93)
T ss_dssp             EEEC-CCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTTTS
T ss_pred             EEeC-CCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            3434 445667888999999999999998899888888999999999999999 9999999999999999999998654

>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=99.17  E-value=2.4e-11  Score=103.87  Aligned_cols=94  Identities=17%  Similarity=0.220  Sum_probs=72.1

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCC-CCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSD-ASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~-~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      |..+++|+| ++||..++ +++|++||.+||+|..+.+............. ....+.|||+|.++.+|++|+.  +|..
T Consensus         5 ~~~~~~i~V-~nLp~~~t-e~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~   82 (101)
T d2cpea1           5 DSDNSAIYV-QGLNDSVT-LDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKD   82 (101)
T ss_dssp             CCCCCEEEE-ECCCTTCC-HHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCE
T ss_pred             CCCCCEEEE-ECCCCcCC-HHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCE
Confidence            667899999 89999998 99999999999999655443322111111111 1223789999999999999985  6999


Q ss_pred             cCCceeEEEEeCCCCCCCC
Q 048615          538 WQGHDLQFTWLMPSSSSND  556 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~~~~  556 (634)
                      |.|+.|++.|.++.++.++
T Consensus        83 ~~gr~i~V~~a~~~~p~~s  101 (101)
T d2cpea1          83 FQGSKLKVSLARKKPPMNS  101 (101)
T ss_dssp             ETTEECEEECSSCCCCSTT
T ss_pred             ECCEEEEEEEcCCCCCCCC
Confidence            9999999999998877653

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.17  E-value=2.1e-11  Score=101.27  Aligned_cols=70  Identities=16%  Similarity=0.268  Sum_probs=60.5

Q ss_pred             CCEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeE-EEEEeec
Q 048615          176 LRTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRF-IKLWWAN  248 (634)
Q Consensus       176 ~~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~-IkV~wak  248 (634)
                      .+.|+|+++|++ .+++ +..+|++||.|.++++.++++||||+|.++++|++|++ +|| .|+||. |.|.-+.
T Consensus         4 ~~wV~V~G~p~~-~~~~-il~~F~~~G~I~~~~~~~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~~   75 (81)
T d1wwha1           4 DTWVTVFGFPQA-SASY-ILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCI   75 (81)
T ss_dssp             GGEEEEECCCGG-GHHH-HHHHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECC
T ss_pred             ccEEEEECCChH-HHHH-HHHHHHhhhhhheEEecCCCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeCC
Confidence            478999999995 7765 55689999999999999999999999999999999995 899 899985 5676554

>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=99.17  E-value=3.3e-11  Score=99.22  Aligned_cols=78  Identities=22%  Similarity=0.335  Sum_probs=65.6

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCce
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHD  542 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~  542 (634)
                      |+|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .++|||+|.++.+|++|+.  +|..|.|+.
T Consensus         3 t~l~V-~nLp~~~t-e~~l~~~f~~~G~v~~v~i~~~~~------~~~~-~g~afv~f~~~~~a~~a~~~l~g~~~~g~~   73 (82)
T d1fxla1           3 TNLIV-NYLPQNMT-QEEFRSLFGSIGEIESCKLVRDKI------TGQS-LGYGFVNYIDPKDAEKAINTLNGLRLQTKT   73 (82)
T ss_dssp             SEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEEECTT------TCCE-EEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CEEEE-ECCCCCCC-HHHHHHHHHHhCCcccccceeecc------CCCc-eeeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            56999 89999997 999999999999999999864321      0112 2689999999999999985  699999999


Q ss_pred             eEEEEeCCC
Q 048615          543 LQFTWLMPS  551 (634)
Q Consensus       543 l~l~W~~~~  551 (634)
                      |++.|.+|+
T Consensus        74 l~v~~AkPs   82 (82)
T d1fxla1          74 IKVSYARPS   82 (82)
T ss_dssp             CEEEECCCC
T ss_pred             EEEEEeeCc
Confidence            999998763

>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=99.16  E-value=3e-11  Score=100.92  Aligned_cols=82  Identities=20%  Similarity=0.363  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCce
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHD  542 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~  542 (634)
                      .++|+| ++||..+++++.|+++|.+||+|++|.+.....      ......++|||+|.++.+|++|+. +|..|.|+.
T Consensus         4 ~~~l~V-~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~------~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~   76 (86)
T d2ghpa3           4 GREIMI-RNLSTELLDENLLRESFEGFGSIEKINIPAGQK------EHSFNNCCAFMVFENKDSAERALQMNRSLLGNRE   76 (86)
T ss_dssp             TTEEEE-EEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---------CCCEEEEEEESSHHHHHHHGGGTTEEETTEE
T ss_pred             CCEEEE-ECCCCCcccHHHHHHHHHhhhhccceeeecccC------CccccceeeeEEECCHHHHHHHHhcCCCEECCEE
Confidence            468999 899999987788999999999999999854320      111222689999999999999985 699999999


Q ss_pred             eEEEEeCCCC
Q 048615          543 LQFTWLMPSS  552 (634)
Q Consensus       543 l~l~W~~~~~  552 (634)
                      |++.|..+.+
T Consensus        77 l~V~~a~~kP   86 (86)
T d2ghpa3          77 ISVSLADKKP   86 (86)
T ss_dssp             EEEEECCCCC
T ss_pred             EEEEEcCCCC
Confidence            9999987653

>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=99.15  E-value=3.9e-11  Score=99.92  Aligned_cols=76  Identities=17%  Similarity=0.209  Sum_probs=67.8

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      +.++|+| ++||..++ +++|+++|.+||.|..+.+....             ++|||+|.++.+|++|+.  +|..|.|
T Consensus         7 ~~k~l~V-~nLp~~~t-e~~l~~~F~~~g~i~~~~~~~~r-------------g~afV~f~~~~~A~~Ai~~l~~~~i~g   71 (86)
T d2cpda1           7 SVKILYV-RNLMLSTS-EEMIEKEFNNIKPGAVERVKKIR-------------DYAFVHFSNREDAVEAMKALNGKVLDG   71 (86)
T ss_dssp             CCCEEEE-ESCCTTCC-HHHHHHHHHTTSTTCEEEEEECS-------------SEEEEEESSHHHHHHHHHHHSSEEETT
T ss_pred             CCCEEEE-cCCCCCCC-HHHHHHhhcccceeeeEEEcccc-------------EEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            3578999 89999998 99999999999999988886554             799999999999999984  6999999


Q ss_pred             ceeEEEEeCCCCC
Q 048615          541 HDLQFTWLMPSSS  553 (634)
Q Consensus       541 ~~l~l~W~~~~~~  553 (634)
                      +.|++.|.+|...
T Consensus        72 ~~i~V~~akP~~~   84 (86)
T d2cpda1          72 SPIEVTLAKPVDK   84 (86)
T ss_dssp             EEEEEECCCCCCC
T ss_pred             EEEEEEeccCCCC
Confidence            9999999887654

>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=99.14  E-value=7.9e-12  Score=104.97  Aligned_cols=72  Identities=17%  Similarity=0.107  Sum_probs=64.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +....+++.+..+|.++|.|..++.+.++.++.++|||||+|.+.++| +|+..|||..|.||+|+|+||.++
T Consensus        15 L~~~~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_          15 IHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVK   87 (88)
T ss_dssp             CCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEEC
T ss_pred             CCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEecCC
Confidence            445667888899999999988888888877788899999999999999 999999999999999999999765

>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=99.14  E-value=1.1e-11  Score=104.23  Aligned_cols=73  Identities=15%  Similarity=0.091  Sum_probs=64.6

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +....+++.+..+|+++|.|..+..+.++.++.++|||||+|.+.++| +|+..|||..|+|++|+|.++.++.
T Consensus        13 Lp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p~~   86 (89)
T d2cqba1          13 LAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKPMR   86 (89)
T ss_dssp             CCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             CCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCCCC
Confidence            444567888899999999988888888888888999999999999999 9999999999999999999987543

>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=99.13  E-value=8.1e-11  Score=100.42  Aligned_cols=76  Identities=18%  Similarity=0.330  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC-
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG-  540 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g-  540 (634)
                      .++|+| ++||.+++ +++|+++|.+||+|..|.+...+             +++||+|.++.+|++|+.  +|..|.| 
T Consensus        17 s~tl~V-~nLp~~~t-~~~l~~~f~~~G~i~~~~~~~~~-------------~~afV~f~~~~~A~~A~~~l~~~~i~g~   81 (97)
T d1whya_          17 TTRLWV-GGLGPNTS-LAALAREFDRFGSIRTIDHVKGD-------------SFAYIQYESLDAAQAACAKMRGFPLGGP   81 (97)
T ss_dssp             CSCEEE-ECCCSSCC-HHHHHHHHHTTSCEEEEEECSSS-------------CCEEEEESSHHHHHHHHHHHTTCBCSSS
T ss_pred             CCEEEE-cCCCCCCC-HHHHHHHHHhhcccceEeeeccc-------------cEEEeccCCHHHHHHHHHHhCCCEeCCC
Confidence            478999 89999997 89999999999999999998766             799999999999999985  6999976 


Q ss_pred             -ceeEEEEeCCCCCC
Q 048615          541 -HDLQFTWLMPSSSS  554 (634)
Q Consensus       541 -~~l~l~W~~~~~~~  554 (634)
                       .+|++.|.++.+++
T Consensus        82 ~~~l~v~~ak~~~~s   96 (97)
T d1whya_          82 DRRLRVDFAKSGPSS   96 (97)
T ss_dssp             SCBCEEEECCCCCCC
T ss_pred             ceEEEEEeCCCCCCC
Confidence             58999998876553

>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=99.13  E-value=8.9e-11  Score=99.46  Aligned_cols=83  Identities=17%  Similarity=0.201  Sum_probs=69.0

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      +-..+++|+| ++||..++ +++|+++|.+||+|.+|.+..+..       .....++|||+|.++.+|++|+.  +|..
T Consensus         3 ~~~~s~tlfV-~nlp~~~t-e~~l~~~F~~~G~i~~v~i~~~~~-------~~~~kg~afV~f~~~~~A~~Ai~~l~g~~   73 (93)
T d1h2vz_           3 LLKKSCTLYV-GNLSFYTT-EEQIYELFSKSGDIKKIIMGLDKM-------KKTACGFCFVEYYSRADAENAMRYINGTR   73 (93)
T ss_dssp             TTTTCCEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TCCEEEEEEEEESSHHHHHHHHHHTTTSE
T ss_pred             ccCCCCEEEE-eCCCCCCC-HHHHHHHHHHHCCcceeccccccc-------cccccceEEEEECCHHHHHHHHHHhCCCE
Confidence            4456789999 89999997 999999999999999999865431       11112589999999999999995  6999


Q ss_pred             cCCceeEEEEeCCC
Q 048615          538 WQGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~~g~~l~l~W~~~~  551 (634)
                      |.|+.|++.|....
T Consensus        74 ~~gr~i~V~~a~~~   87 (93)
T d1h2vz_          74 LDDRIIRTDWDAGF   87 (93)
T ss_dssp             ETTEECEEEEESCC
T ss_pred             ECCEEEEEEEcCCC
Confidence            99999999997543

>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=99.13  E-value=2e-11  Score=104.51  Aligned_cols=77  Identities=13%  Similarity=0.127  Sum_probs=67.2

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .|+| +....+++++..+|.++|.|..++.+.++.++.++|||||+|.+.++| +||..|||..|+||+|+|.++..+.
T Consensus        12 fV~n-L~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~~~   89 (99)
T d1whwa_          12 FVRN-LSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIKK   89 (99)
T ss_dssp             EEEC-CCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCCCS
T ss_pred             EEEC-CCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            3434 444667888999999999998888888888888999999999999999 9999999999999999999998765

>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=99.12  E-value=1.4e-11  Score=106.23  Aligned_cols=78  Identities=13%  Similarity=0.112  Sum_probs=67.6

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      ++|+| +....+++.+..+|.++|.+..+..+.++.++.++|||||+|.+.++| .||..|||..|+||+|+|.++.++.
T Consensus        21 l~V~n-Lp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~k~   99 (102)
T d2cpza1          21 LFIYH-LPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKN   99 (102)
T ss_dssp             EEEES-CCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCCSC
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCCCC
Confidence            34444 555678888999999999888888888888888899999999999999 9999999999999999999998765

>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=99.12  E-value=1.5e-11  Score=101.84  Aligned_cols=72  Identities=10%  Similarity=0.214  Sum_probs=61.4

Q ss_pred             Cccccccccccceeeeccee-eeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           82 TAAVSQNTSMSVWGRIGSSK-NRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        82 ~~~~s~~~~~svfg~Ig~V~-~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +...+++.+..+|.++|.|. ..+.++++.++.++|||||+|.+.++| +||..|||..|+||+|+|.++.++.
T Consensus         7 p~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k~   80 (83)
T d1x5ta1           7 DPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKD   80 (83)
T ss_dssp             CTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCCC
T ss_pred             CCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCCC
Confidence            34567788889999988864 345677777788899999999999999 9999999999999999999997654

>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=99.11  E-value=1.8e-10  Score=97.65  Aligned_cols=84  Identities=21%  Similarity=0.338  Sum_probs=69.2

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH---cCCc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL---SGKS  537 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~---~g~~  537 (634)
                      ...+++|+| ++||..++ +++|+++|.+||.|.+|.+..+...     .-.+ .++|||+|.+..+|++|+.   +|..
T Consensus         5 ~~~~~~l~V-~nLp~~~~-e~~l~~~F~~~G~i~~v~i~~~~~~-----~g~~-rg~afV~f~~~~~A~~Ai~~l~~~~~   76 (94)
T d2cpha1           5 KQTTSKILV-RNIPFQAN-QREIRELFSTFGELKTVRLPKKMTG-----TGAH-RGFGFVDFITKQDAKKAFNALCHSTH   76 (94)
T ss_dssp             SSCCCCEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCCCCSS-----SCSS-CSEEEEEESSHHHHHHHHHHHHTCCB
T ss_pred             CCCCCEEEE-eCCCCCCC-HHHHHHHHHHhCCceEEEEEecccc-----CCCc-ccEEEEEECCHHHHHHHHHHccCCcE
Confidence            356788999 89999997 9999999999999999998644310     0012 2799999999999999984   6999


Q ss_pred             cCCceeEEEEeCCCC
Q 048615          538 WQGHDLQFTWLMPSS  552 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~  552 (634)
                      |.|+.|++.|..+..
T Consensus        77 ~~Gr~l~V~~A~~~~   91 (94)
T d2cpha1          77 LYGRRLVLEWADSEV   91 (94)
T ss_dssp             SSSCBCEEEECCCCC
T ss_pred             ECCEEEEEEEcCCCC
Confidence            999999999987654

>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=99.11  E-value=1.1e-10  Score=100.09  Aligned_cols=77  Identities=17%  Similarity=0.219  Sum_probs=65.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      +..+++|+| ++||...+++++|+++|.+||.|.+|.+.  +             +++||+|.++.+|++|+.  +|..|
T Consensus        12 ~~~~~~lfV-~nL~~~~~~~~~L~~~F~~~G~i~~~~i~--r-------------g~aFV~f~~~~~A~~Ai~~lng~~~   75 (98)
T d1wf2a_          12 RSMNSRVFI-GNLNTLVVKKSDVEAIFSKYGKIVGCSVH--K-------------GFAFVQYVNERNARAAVAGEDGRMI   75 (98)
T ss_dssp             SSCCCCEEE-EEECTTTCCHHHHHHSSTTSSCEEEEEEE--T-------------EEEEEEESSHHHHHHHHHTTTTCEE
T ss_pred             CCCCcEEEE-eCCCcccCCHHHHHHHHhhcCCEEEEEEe--C-------------CeEEEEECCHHHHHHHHHHcCCCEE
Confidence            445677999 89976544588999999999999999994  2             689999999999999985  69999


Q ss_pred             CCceeEEEEeCCCCC
Q 048615          539 QGHDLQFTWLMPSSS  553 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~  553 (634)
                      .|+.|++.|..++..
T Consensus        76 ~g~~l~V~~a~~~~~   90 (98)
T d1wf2a_          76 AGQVLDINLAAEPKV   90 (98)
T ss_dssp             TTEECEEEETTSCCC
T ss_pred             CCEEEEEEECCCCCC
Confidence            999999999876543

>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=99.11  E-value=7.3e-11  Score=101.36  Aligned_cols=75  Identities=25%  Similarity=0.356  Sum_probs=65.3

Q ss_pred             CCCCEEEEeCC--CCCCCC---------HHHHHHhhccCCCEEEEEEecC--CCeEEEEeCCHHHHHHHHHcCCC-ccCC
Q 048615          174 KALRTLFVNNV--PLKSNR---------REALLSHFQKFGEVVDIYIPLN--SERAFVQFSKREEAEAALKSPDA-VMGN  239 (634)
Q Consensus       174 ~~~~tLfVgnL--p~d~~t---------e~~L~~~FskfG~I~~v~v~~d--kg~AFV~F~s~e~A~~Ai~~lng-~l~g  239 (634)
                      +..++|+|.||  |.+ +.         .++|+..|++||.|..|.+..+  +|||||+|.+.++|.+|+..|+| .++|
T Consensus         6 ~~~r~v~l~nmf~~~~-~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~lng~~~~g   84 (99)
T d2dita1           6 RHERVVIIKNMFHPMD-FEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGG   84 (99)
T ss_dssp             CSCCEEEEESSCCTTH-HHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETT
T ss_pred             CCccEEEEccCCCHHH-hhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCccEEEEEECCHHHHHHHHHHhCCcEECC
Confidence            45789999998  553 21         3679999999999999998876  47999999999999999999999 8999


Q ss_pred             eEEEEEeecC
Q 048615          240 RFIKLWWANR  249 (634)
Q Consensus       240 R~IkV~wak~  249 (634)
                      |.|+|.|+.+
T Consensus        85 r~i~v~~~~g   94 (99)
T d2dita1          85 RQITAQAWDG   94 (99)
T ss_dssp             EECEEEECCS
T ss_pred             EEEEEEEeCC
Confidence            9999999863

>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=99.10  E-value=8.6e-11  Score=99.17  Aligned_cols=83  Identities=19%  Similarity=0.186  Sum_probs=70.4

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHcCCccCCc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLSGKSWQGH  541 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~g~~~~g~  541 (634)
                      .++++|+| ++||..++ +++|+++|.+||+|.+|.+.-+..      ...++ +.|||+|.+..+|++|+.++..|.|+
T Consensus         6 ~~~~~lfV-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~d~~------tg~sr-G~aFV~f~~~~~a~~al~~~~~l~Gr   76 (90)
T d2cqga1           6 QKTSDLIV-LGLPWKTT-EQDLKEYFSTFGEVLMVQVKKDLK------TGHSK-GFGFVRFTEYETQVKVMSQRHMIDGR   76 (90)
T ss_dssp             CCCCCEEE-ESCCSSCC-HHHHHHHHGGGSCEEEEEEEECSS------SCSEE-EEEEEEESSHHHHHHHHHSCEEETTE
T ss_pred             cCCCeEEE-ECCCCCCC-HHHHHHHHHhhcccceeeeccCCC------CcccC-CEEEEEECCHHHHHHHHhcCCccCCE
Confidence            46789999 89999998 899999999999999999875431      11222 69999999999999999988889999


Q ss_pred             eeEEEEeCCCCC
Q 048615          542 DLQFTWLMPSSS  553 (634)
Q Consensus       542 ~l~l~W~~~~~~  553 (634)
                      .|++.|..+..+
T Consensus        77 ~i~v~~a~~k~~   88 (90)
T d2cqga1          77 WCDCKLPNSKQS   88 (90)
T ss_dssp             EEEEECCCTTCC
T ss_pred             EeEEEeCCCCCC
Confidence            999999877654

>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=99.09  E-value=1.4e-11  Score=101.39  Aligned_cols=75  Identities=15%  Similarity=0.094  Sum_probs=59.1

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      .|+| +....+++.+..+|+++|.|.....+..+..+.++|||||+|.+.++| +|+..|||..+.||+|+|.++.|
T Consensus         5 ~v~n-Lp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           5 WMTN-FPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             EEEC-CCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             EEEC-CCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            3444 455678888999999999987777777777778899999999999999 99999999999999999998864

>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=99.08  E-value=3.1e-10  Score=97.82  Aligned_cols=84  Identities=20%  Similarity=0.219  Sum_probs=69.7

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCcc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSW  538 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~  538 (634)
                      -|...|+|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...++ ++|||+|.++.+|++|+.. +..|
T Consensus         6 ~d~~~~~lfV-~nLp~~~t-e~~l~~~F~~~G~i~~v~i~~d~~------tg~~k-g~afV~f~~~~~A~~Ai~~~~~~l   76 (103)
T d2cqda1           6 KDTTFTKIFV-GGLPYHTT-DASLRKYFEGFGDIEEAVVITDRQ------TGKSR-GYGFVTMADRAAAERACKDPNPII   76 (103)
T ss_dssp             CSCSSSEEEE-ECCCSSCC-HHHHHHHHHTTSCEEEEEESCCSS------SCCCC-SEEEEEESSHHHHHHHHTCSSCEE
T ss_pred             CCCCCcEEEE-eCCCCcCc-HHHHHHHHhhcccccceecccccc------ccccC-CeEEEEECCHHHHHHHHHHCCCcC
Confidence            4777889999 89999997 999999999999999999876541      01233 6999999999999999864 4478


Q ss_pred             CCceeEEEEeCCCC
Q 048615          539 QGHDLQFTWLMPSS  552 (634)
Q Consensus       539 ~g~~l~l~W~~~~~  552 (634)
                      .|+.|++.|..+..
T Consensus        77 ~Gr~l~V~~a~~~~   90 (103)
T d2cqda1          77 DGRKANVNLAYLGA   90 (103)
T ss_dssp             TTEECEEEESTTTC
T ss_pred             CCEEEEEEEcCCCC
Confidence            99999999987654

>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=99.08  E-value=2.6e-11  Score=100.78  Aligned_cols=72  Identities=21%  Similarity=0.253  Sum_probs=58.4

Q ss_pred             CCccccccccccceeeecceeeeeccccccCC---CcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDA---TLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~---~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +....+++.+..+|+++|.|..+.+++++.+.   .++|||||+|.+.++| +|+..|||..|+||+|+|.++.+.
T Consensus         6 Lp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~~   81 (85)
T d2cpfa1           6 LNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISERA   81 (85)
T ss_dssp             CCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSCS
T ss_pred             CCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            34456777788888888887777666655443   4689999999999999 999999999999999999998644

>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=99.07  E-value=2.2e-10  Score=94.74  Aligned_cols=72  Identities=19%  Similarity=0.205  Sum_probs=63.0

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc-CC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW-QG  540 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~-~g  540 (634)
                      +++|+| ++||..++ +++|+++|.+||+|.+|.+....            .++|||.|.++.+|++|+.  +|..| +|
T Consensus         8 ~~tl~V-~nLp~~~t-~~~l~~~f~~~G~i~~v~~~~~~------------~g~afV~f~~~~~A~~A~~~l~g~~~~~~   73 (83)
T d2b0ga1           8 NQILFL-TNLPEETN-EMMLSMLFNQFPGFKEVRLVPNR------------HDIAFVEFTTELQSNAAKEALQGFKITPT   73 (83)
T ss_dssp             CSEEEE-ESCCTTCC-HHHHHHHHTTSTTEEEEEECTTT------------CSCEEEEESSHHHHHHHHHHHTTCBSSTT
T ss_pred             CCEEEE-ECCCCCCC-HHHHHhhhccCccEEEeeeeccc------------ceeEEEecCCHHHHHHHHHHhCCcEeCCC
Confidence            468999 89999997 89999999999999999986543            2699999999999999984  69888 56


Q ss_pred             ceeEEEEeC
Q 048615          541 HDLQFTWLM  549 (634)
Q Consensus       541 ~~l~l~W~~  549 (634)
                      +.|+|.|.+
T Consensus        74 ~~i~v~~ak   82 (83)
T d2b0ga1          74 HAMKITFAK   82 (83)
T ss_dssp             CBCEEEECC
T ss_pred             cEEEEEEec
Confidence            899999975

>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=99.07  E-value=6.2e-10  Score=95.99  Aligned_cols=77  Identities=17%  Similarity=0.142  Sum_probs=67.6

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCCc
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGKS  537 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~~  537 (634)
                      .-.++|+| ++||..++ +++|+++|.+||.|..|.+...+             ++|||.|.++.+|++|+.    ++..
T Consensus        13 ~ps~~l~v-~nlp~~~t-e~~l~~~F~~fG~I~~~~~~~~k-------------~~AfV~f~~~e~A~~ai~~~~~~~~~   77 (104)
T d1wexa_          13 SVSPVVHV-RGLCESVV-EADLVEALEKFGTICYVMMMPFK-------------RQALVEFENIDSAKECVTFAADVPVY   77 (104)
T ss_dssp             CCCSEEEE-ESCCSSCC-HHHHHHHHTTTSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHHHSCCB
T ss_pred             CCCCEEEE-eCCCCCCC-HHHHHHhhhhcccceEEEEEecc-------------eeEEEEeCCHHHHHHHHHHHcCCCcE
Confidence            44678999 79999997 99999999999999999998765             799999999999999984    3667


Q ss_pred             cCCceeEEEEeCCCCC
Q 048615          538 WQGHDLQFTWLMPSSS  553 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~~  553 (634)
                      +.|++|+|.|.+....
T Consensus        78 ~~g~~l~v~~s~~~~~   93 (104)
T d1wexa_          78 IAGQQAFFNYSTSKRI   93 (104)
T ss_dssp             SSSSBCEEEECSSSSC
T ss_pred             EeeEEEEEEEcCCCcc
Confidence            8999999999877543

>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=99.07  E-value=3.3e-10  Score=96.08  Aligned_cols=79  Identities=20%  Similarity=0.352  Sum_probs=67.9

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      .+.+++|+| ++||..++ +++|++||.+||.|..|.+....         .. .++|||+|.+..+|++|+.  +|..|
T Consensus        11 ~~~~~~l~V-~nLp~~~t-~~~l~~~F~~~G~v~~~~~~~~~---------~~-~g~afV~f~~~e~a~~Ai~~l~g~~~   78 (95)
T d1x4aa1          11 GNNDCRIYV-GNLPPDIR-TKDIEDVFYKYGAIRDIDLKNRR---------GG-PPFAFVEFEDPRDAEDAVYGRDGYDY   78 (95)
T ss_dssp             CCCSSEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEECCSS---------SS-SCCEEEEESCHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEE-ECCCCCCC-HHHHHHHHhcCCceEEEEecccc---------cc-cceEEEEECCHHHHHHHHHHhCCCEE
Confidence            455678999 89999997 99999999999999999886543         12 2789999999999999984  69999


Q ss_pred             CCceeEEEEeCCC
Q 048615          539 QGHDLQFTWLMPS  551 (634)
Q Consensus       539 ~g~~l~l~W~~~~  551 (634)
                      .|+.|++.|.++.
T Consensus        79 ~g~~l~V~~a~~~   91 (95)
T d1x4aa1          79 DGYRLRVEFPRSG   91 (95)
T ss_dssp             TTEECEEECCCCC
T ss_pred             CCEEEEEEeccCC
Confidence            9999999997654

>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=99.06  E-value=2.3e-10  Score=93.63  Aligned_cols=75  Identities=19%  Similarity=0.317  Sum_probs=64.8

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCcee
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDL  543 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l  543 (634)
                      +|+| ++||..++ +++|++||.+||.|.+|++..+..       ..++ ++|||+|.++.+|++|+.  +|..|.|+.|
T Consensus         2 rl~V-~nLp~~~~-~~~l~~~F~~~G~v~~~~i~~~~~-------g~~~-g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l   71 (78)
T d1no8a_           2 KLLV-SNLDFGVS-DADIQELFAEFGTLKKAAVHYDRS-------GRSL-GTADVHFERKADALKAMKQYNGVPLDGRPM   71 (78)
T ss_dssp             EEEE-ESCCTTCC-HHHHHHHHHHHSCEEEEEESCSSC-------CCSC-CEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             EEEE-ECCCCCCC-HHHHHHHHHHhCCCeEEEEEEeec-------cccc-eeEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            4899 89999997 999999999999999999976541       1122 699999999999999985  6999999999


Q ss_pred             EEEEeCC
Q 048615          544 QFTWLMP  550 (634)
Q Consensus       544 ~l~W~~~  550 (634)
                      ++.|.++
T Consensus        72 ~V~~a~S   78 (78)
T d1no8a_          72 NIQLVTS   78 (78)
T ss_dssp             EEEEECC
T ss_pred             EEEEeeC
Confidence            9999864

>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=99.06  E-value=3.1e-10  Score=94.44  Aligned_cols=79  Identities=18%  Similarity=0.195  Sum_probs=66.9

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCcee
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDL  543 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l  543 (634)
                      +|+| ++||..++ +++|+++|.+||+|.+|.+..+..      .-.++ +++||+|.+..+|++|+.  +|..|.|+.|
T Consensus         3 rlfV-~nlp~~~t-e~~l~~~F~~~G~v~~v~i~~d~~------tg~~r-g~aFV~f~~~~~A~~a~~~l~~~~l~g~~l   73 (85)
T d2u2fa_           3 KLFI-GGLPNYLN-DDQVKELLTSFGPLKAFNLVKDSA------TGLSK-GYAFCEYVDINVTDQAIAGLNGMQLGDKKL   73 (85)
T ss_dssp             CEEE-ETCCSSCC-SHHHHHHHTSSSCEEEEEEECCCS------SSCCC-CEEEEEESSSHHHHHHHHTSSSCCCSSSCC
T ss_pred             EEEE-ECCCCCCC-HHHHHHHHHhcCccceEEeecccc------ccccc-eeEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            5899 89999998 899999999999999999975431      01122 799999999999999996  4999999999


Q ss_pred             EEEEeCCCCC
Q 048615          544 QFTWLMPSSS  553 (634)
Q Consensus       544 ~l~W~~~~~~  553 (634)
                      ++.|..+.+.
T Consensus        74 ~V~~A~~~~~   83 (85)
T d2u2fa_          74 LVQRASVGAK   83 (85)
T ss_dssp             EEEECCCCCC
T ss_pred             EEEECCCCCC
Confidence            9999876543

>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=99.05  E-value=2.3e-10  Score=97.98  Aligned_cols=76  Identities=16%  Similarity=0.250  Sum_probs=67.9

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCccC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQ  539 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~~  539 (634)
                      ....+|+| ++||.+++ +++|++||.+||+|.+|.+...              +++||+|.+..+|++|+  ++|..|.
T Consensus        13 ~~~~~i~V-~Nlp~~~~-~~~L~~~F~~~G~v~~~~i~~~--------------g~afV~f~~~~~a~~Ai~~lng~~~~   76 (98)
T d1wg4a_          13 RSDFRVLV-SGLPPSGS-WQDLKDHMREAGDVCYADVQKD--------------GMGMVEYLRKEDMEYALRKLDDTKFR   76 (98)
T ss_dssp             SCSCEEEE-ECCCSSCC-HHHHHHHHTTSSCEEEEEEETT--------------TEEEEEESSHHHHHHHHHHHSSEEEE
T ss_pred             CCCCEEEE-ECCCCCCC-HHHHHHHHHhhccccccccccc--------------ceEEEEECCHHHHHHHHHHhCCCEeC
Confidence            45667999 89999997 9999999999999999998743              69999999999999998  4799999


Q ss_pred             CceeEEEEeCCCCC
Q 048615          540 GHDLQFTWLMPSSS  553 (634)
Q Consensus       540 g~~l~l~W~~~~~~  553 (634)
                      |+.|++.|..+...
T Consensus        77 g~~i~v~~~~~~~~   90 (98)
T d1wg4a_          77 SHEGETSYIRVYPE   90 (98)
T ss_dssp             CTTSCEEEEEEECC
T ss_pred             CeEEEEEEEecCCC
Confidence            99999999987654

>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=99.05  E-value=2.2e-11  Score=101.35  Aligned_cols=69  Identities=14%  Similarity=0.328  Sum_probs=61.5

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCC--EEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRG--KRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~G--R~I~V~~a  149 (634)
                      +....+++.+..+|+++|.|..++.++++.++.++|||||+|.+.++| +||..|||..+.|  |+|+|.||
T Consensus        14 lp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2          14 LPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             CCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            445668888999999999998888888888888999999999999999 9999999999977  89999986

>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=99.05  E-value=2.4e-10  Score=95.55  Aligned_cols=73  Identities=11%  Similarity=0.129  Sum_probs=65.0

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCCccC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGKSWQ  539 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~~~~  539 (634)
                      .++|+| ++||..++ +++|+++|.+||.|.+|.+....             ++|||+|.++.+|++|+.    ++..|.
T Consensus         8 s~~l~V-~nLp~~~t-~~~L~~~f~~~G~i~~v~~~~~~-------------~~afV~f~~~e~A~~a~~~~~~~~~~~~   72 (88)
T d2cq1a1           8 SRVLHI-RKLPGEVT-ETEVIALGLPFGKVTNILMLKGK-------------NQAFLELATEEAAITMVNYYSAVTPHLR   72 (88)
T ss_dssp             CSEEEE-ESCCTTCC-HHHHHHTTTTTSCEEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHhcccccccccccccc-------------eEEEEEeCCHHHHHHHHHHHccCCCccC
Confidence            356888 89999987 99999999999999999998765             799999999999999975    377899


Q ss_pred             CceeEEEEeCCC
Q 048615          540 GHDLQFTWLMPS  551 (634)
Q Consensus       540 g~~l~l~W~~~~  551 (634)
                      |+.|+|.|.+..
T Consensus        73 g~~l~v~~sk~~   84 (88)
T d2cq1a1          73 NQPIYIQYSNHK   84 (88)
T ss_dssp             TEECEEEECSCS
T ss_pred             CCEEEEEECCCC
Confidence            999999997654

>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=99.05  E-value=3.5e-11  Score=109.12  Aligned_cols=78  Identities=15%  Similarity=0.155  Sum_probs=66.5

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      +.|+| +....+++.+..+|.++|.|..+..+.++.++.++|||||+|.+.++| +||..|||..|+||+|+|.++..+.
T Consensus        45 l~V~n-Lp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~~~  123 (139)
T d1u6fa1          45 LMVNY-IPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAASGH  123 (139)
T ss_dssp             EEEES-CSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSCCC
T ss_pred             EEEeC-CCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            34444 444567888899999999988888888887778899999999999999 9999999999999999999997655

>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=99.05  E-value=3.3e-10  Score=97.96  Aligned_cols=75  Identities=17%  Similarity=0.224  Sum_probs=64.6

Q ss_pred             cceEEEcCCCCC-CCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          464 PTAFRIMPPLPV-GFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       464 ~t~l~V~~~l~~-~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      +++|+| ++||+ .++ +++|+++|..||+|.+|.+..+.            .++|||+|.+..+|++|+.  +|..|.|
T Consensus         2 ~~~l~V-~nL~p~~~t-e~~L~~~F~~fG~I~~v~i~~~~------------kg~afV~f~~~~~A~~ai~~lng~~l~g   67 (109)
T d2adca1           2 NSVLLV-SNLNPERVT-PQSLFILFGVYGDVQRVKILFNK------------KENALVQMADGNQAQLAMSHLNGHKLHG   67 (109)
T ss_dssp             CSEEEE-ESCCTTTCC-HHHHHHHHHHHTCEEEEEECCTT------------SCCEEEEESCHHHHHHHHHHHTTCBCSS
T ss_pred             CCEEEE-eCCCcccCC-HHHHHHHHhhccccceEEEEecc------------cceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            578999 89955 565 99999999999999999987543            2699999999999999995  5999999


Q ss_pred             ceeEEEEeCCCC
Q 048615          541 HDLQFTWLMPSS  552 (634)
Q Consensus       541 ~~l~l~W~~~~~  552 (634)
                      +.|++.|.+...
T Consensus        68 ~~l~v~~s~~~~   79 (109)
T d2adca1          68 KPIRITLSKHQN   79 (109)
T ss_dssp             SBCEEECCSCCC
T ss_pred             EEEEEEECCCCC
Confidence            999999976443

>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=99.05  E-value=2e-10  Score=99.31  Aligned_cols=81  Identities=15%  Similarity=0.151  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCce
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHD  542 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~  542 (634)
                      .++|+| |+||..++ +++|++||.+||+|..|.|.-+..      ...++ ++|||+|.++.+|++|+. +|..|.|+.
T Consensus        20 ~~~lfV-gnLp~~~t-e~~L~~~F~~~G~i~~~~i~~d~~------~~~~k-g~aFV~f~~~~~a~~al~~~~~~l~G~~   90 (103)
T d1x4ba1          20 FRKLFI-GGLSFETT-EESLRNYYEQWGKLTDCVVMRDPA------SKRSR-GFGFVTFSSMAEVDAAMAARPHSIDGRV   90 (103)
T ss_dssp             HTEEEE-ECCTTCCC-HHHHHHHHTSSCCCSEEEEECCTT------TSSCC-SEEEEECSSHHHHHHHHTSCSEEETTEE
T ss_pred             CCEEEE-eCCCCcCC-HHHHHHHHHhhCcccceeeccccc------CCCcc-CeEEEEECCHHHHHHHHHhCCCeECCEE
Confidence            378999 89999997 999999999999999999865431      11122 799999999999999984 488899999


Q ss_pred             eEEEEeCCCCC
Q 048615          543 LQFTWLMPSSS  553 (634)
Q Consensus       543 l~l~W~~~~~~  553 (634)
                      |.+.|..+...
T Consensus        91 i~V~~a~~ke~  101 (103)
T d1x4ba1          91 VEPKRAVAREE  101 (103)
T ss_dssp             EEEECCSSCCC
T ss_pred             EEEEECcccCC
Confidence            99999887654

>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=99.05  E-value=2.1e-10  Score=95.35  Aligned_cols=77  Identities=22%  Similarity=0.338  Sum_probs=63.3

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      +.++|+| ++||..++ +++|+++|.+||+|.+|.+..+..      ...+ .+++||+|.++.+|++|+.  +|..|.|
T Consensus         5 k~~~lfV-~nLp~~~t-e~~L~~~F~~~G~v~~v~i~~d~~------~g~~-kg~afV~f~~~~~a~~Ai~~lng~~~~G   75 (85)
T d1fxla2           5 RDANLYV-SGLPKTMT-QKELEQLFSQYGRIITSRILVDQV------TGVS-RGVGFIRFDKRIEAEEAIKGLNGQKPSG   75 (85)
T ss_dssp             TTCEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT------TCCE-EEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHHhCCccccccccccc------cccC-CCeeEEEEcCHHHHHHHHHHhCCCEeCC
Confidence            4567999 89999997 999999999999999999864321      0012 2689999999999999984  6999988


Q ss_pred             --ceeEEEEe
Q 048615          541 --HDLQFTWL  548 (634)
Q Consensus       541 --~~l~l~W~  548 (634)
                        .+|++.|.
T Consensus        76 ~~~~i~V~~A   85 (85)
T d1fxla2          76 ATEPITVKFA   85 (85)
T ss_dssp             CSSCCEEEEC
T ss_pred             CCEEEEEEeC
Confidence              56999994

>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=99.04  E-value=7.1e-11  Score=98.77  Aligned_cols=72  Identities=15%  Similarity=0.219  Sum_probs=64.1

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCcee
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHDL  543 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~l  543 (634)
                      +|+| ++||.+++ +++|++||.+||+|.+|.+..+              ++|||+|.+..+|++|+.  +|..|.|+.|
T Consensus         2 rvfV-~nlp~~~~-~~~l~~~F~~~G~v~~~~i~~~--------------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i   65 (87)
T d3begb1           2 RVVV-SGLPPSGS-WQDLKDHMREAGDVCYADVYRD--------------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEG   65 (87)
T ss_dssp             CEEE-EECCSSCC-TTHHHHHHGGGSCEEEEEECTT--------------SEEEEEESSHHHHHHHHHHHTTCBCCCTTS
T ss_pred             eEEE-ECCCCcCC-HHHHHHHHhhhccccccccccc--------------ceeeEEeCCHHHHHHHHHHhCCCEECCcEe
Confidence            4899 89999997 8999999999999999998643              589999999999999984  7999999999


Q ss_pred             EEEEeCCCCC
Q 048615          544 QFTWLMPSSS  553 (634)
Q Consensus       544 ~l~W~~~~~~  553 (634)
                      ++.|+.+...
T Consensus        66 ~v~~~~~~~~   75 (87)
T d3begb1          66 ETAYIRVKVD   75 (87)
T ss_dssp             CCCBCEEEEC
T ss_pred             EEeEEecCcC
Confidence            9999876543

>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=99.04  E-value=8.2e-11  Score=96.90  Aligned_cols=73  Identities=16%  Similarity=0.131  Sum_probs=63.8

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC-ccCCce
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK-SWQGHD  542 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~-~~~g~~  542 (634)
                      +|+| |+||.+++ +++|+++|.+||.|.++.+...+             ++|||+|.++.+|++|+.  +|. .|.|+.
T Consensus         3 ~l~V-~nLp~~~t-e~~L~~~F~~~G~i~~~~~~~~r-------------g~aFV~f~~~~~A~~Ai~~lng~~~~~G~~   67 (80)
T d2cqha1           3 KLYI-GNLSPAVT-ADDLRQLFGDRKLPLAGQVLLKS-------------GYAFVDYPDQNWAIRAIETLSGKVELHGKI   67 (80)
T ss_dssp             CEEE-ECCCTTCC-HHHHHHHHHHTTCCCSSCEEEET-------------TEEEECCSCHHHHHHHHHHHTTTCEETTEE
T ss_pred             EEEE-ECCCCCCC-HHHHHHHHHHhCcEEEeEEeccc-------------ceEEEEECCHHHHHHHHHHhCCCeEECCEE
Confidence            5899 89999997 99999999999999877666554             799999999999999994  587 499999


Q ss_pred             eEEEEeCCCCC
Q 048615          543 LQFTWLMPSSS  553 (634)
Q Consensus       543 l~l~W~~~~~~  553 (634)
                      |++.|..|...
T Consensus        68 i~V~~a~~k~~   78 (80)
T d2cqha1          68 MEVDYSVSKKL   78 (80)
T ss_dssp             CEEEECCCCCC
T ss_pred             EEEEEcCCcCc
Confidence            99999887544

>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=99.04  E-value=8.8e-12  Score=108.30  Aligned_cols=70  Identities=19%  Similarity=0.194  Sum_probs=64.1

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC-----CeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEee
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS-----ERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWA  247 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk-----g~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wa  247 (634)
                      +.++|.+++.+ +++++|+++|++||.|.+|+|+++.     |||||+|.+.++|.+|++.|+| .++||.|+|.|.
T Consensus        28 ~~~~v~~~~~~-~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDE-FFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHH-HHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhh-hhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            46888888885 9999999999999999999998653     7999999999999999999999 899999999985

>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=99.03  E-value=4.1e-10  Score=94.31  Aligned_cols=80  Identities=23%  Similarity=0.270  Sum_probs=66.6

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCce
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHD  542 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~  542 (634)
                      ++|+| |+||..++ +++|+++|.+||.|..|.+.....      ...+ .++|||.|.+..+|++|+.  +|..|.|+.
T Consensus         6 ~kifV-~nLp~~~t-~~~l~~~F~~~G~i~~~~~~~~~~------~~~~-~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~   76 (90)
T d1x5sa1           6 GKLFV-GGLSFDTN-EQSLEQVFSKYGQISEVVVVKDRE------TQRS-RGFGFVTFENIDDAKDAMMAMNGKSVDGRQ   76 (90)
T ss_dssp             SEEEE-ESCCTTCC-HHHHHHHHHHHSCCCEEEECCCSS------SCSC-CSEEEEECSSHHHHHHHHHHHTTCCTTSCC
T ss_pred             CEEEE-ECCCCcCC-HHHHHHhhhccccccceeeccccc------cccc-cceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            45999 89999997 999999999999999998664431      1112 2689999999999999984  699999999


Q ss_pred             eEEEEeCCCCC
Q 048615          543 LQFTWLMPSSS  553 (634)
Q Consensus       543 l~l~W~~~~~~  553 (634)
                      |++.|..+...
T Consensus        77 l~V~~a~~~~~   87 (90)
T d1x5sa1          77 IRVDQAGKSSD   87 (90)
T ss_dssp             CEEEEEECCCC
T ss_pred             EEEEEcCCCCC
Confidence            99999876654

>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=99.02  E-value=5.6e-11  Score=98.32  Aligned_cols=70  Identities=19%  Similarity=0.177  Sum_probs=61.5

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEE
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIE  146 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V  146 (634)
                      .|+| +....+++.+..+|.++|.|..+..++++.++.++|||||+|.+.++| +||..|||..|+||+|+|
T Consensus        13 ~V~n-L~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          13 GVFG-LSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             EEES-CCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             EEeC-CCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            4444 556778888999999999988888888887788899999999999999 999999999999999987

>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=99.01  E-value=3.2e-10  Score=95.05  Aligned_cols=77  Identities=23%  Similarity=0.245  Sum_probs=66.8

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCce
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGHD  542 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~~  542 (634)
                      ++|+| ++||.+++ +++|+++|.+||+|.+|.+..+..        .++ ++|||+|.+..+|++|+.  +|..|.|+.
T Consensus         9 ~~l~V-~nLp~~~t-~~~l~~~F~~~G~v~~~~i~~~~~--------~~k-g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   77 (89)
T d1cvja2           9 GNIFI-KNLDKSID-NKALYDTFSAFGNILSCKVVCDEN--------GSK-GYGFVHFETQEAAERAIEKMNGMLLNDRK   77 (89)
T ss_dssp             TEEEE-ESCCSSCC-HHHHHHHHHTTSCEEEEEECCBTT--------BCC-SCEEEEESCHHHHHHHTTSSSEEEETTEE
T ss_pred             CEEEE-eCCCCCCC-HHHHHHHHHhcCCceEEEEEeecC--------CCc-ceeEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            46999 89999997 999999999999999999876531        123 799999999999999994  599999999


Q ss_pred             eEEEEeCCCC
Q 048615          543 LQFTWLMPSS  552 (634)
Q Consensus       543 l~l~W~~~~~  552 (634)
                      |.+.|..+..
T Consensus        78 i~V~~a~~~~   87 (89)
T d1cvja2          78 VFVGRFKSRK   87 (89)
T ss_dssp             EEEEECCCTT
T ss_pred             EEEEECCCCC
Confidence            9999988654

>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=99.01  E-value=6.5e-10  Score=94.14  Aligned_cols=81  Identities=19%  Similarity=0.234  Sum_probs=67.2

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--------cC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--------SG  535 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--------~g  535 (634)
                      .++|+| |+||.+++ +++|+++|.+||.|.+|.+.....      ...+ .++|||+|.++.+|++|+.        .|
T Consensus         8 ~~tlfV-~nLp~~~t-e~~l~~~f~~~G~v~~~~~~~~~~------~~~~-~g~afV~F~~~~~a~~ai~~l~~~~~~~g   78 (98)
T d1x4ha1           8 GKTVFI-RNLSFDSE-EEALGEVLQQFGDLKYVRVVLHPD------TEHS-KGCAFAQFMTQEAAQKCLAAASLEAEGGG   78 (98)
T ss_dssp             CCCEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEECCBCSS------SCCB-CSEEEEEESSHHHHHHHHHHHCTTTTTCC
T ss_pred             CCEEEE-cCCCCcCC-HHHHHHHHhccccceeeeeccccc------cccc-cceEEEEEcCHHHHHHHHHHcccccccCC
Confidence            568999 89999998 999999999999999999875541      1112 2799999999999999986        36


Q ss_pred             CccCCceeEEEEeCCCCC
Q 048615          536 KSWQGHDLQFTWLMPSSS  553 (634)
Q Consensus       536 ~~~~g~~l~l~W~~~~~~  553 (634)
                      ..|.|+.|++.|..+...
T Consensus        79 ~~~~gr~l~v~~a~~k~~   96 (98)
T d1x4ha1          79 LKLDGRQLKVDLAVTRDE   96 (98)
T ss_dssp             EESSSCEEEEECCCCCCC
T ss_pred             cEECCEEEEEEECCCCCc
Confidence            788999999999876543

>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=99.01  E-value=3.8e-11  Score=103.57  Aligned_cols=70  Identities=14%  Similarity=0.178  Sum_probs=62.3

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +....+++.+..+|..+|.|..+.+++++.++.++|||||+|.+.++| +|+ .|||..|+|++|+|.++.+
T Consensus        26 L~~~~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          26 LAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             CCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHH-HHCCCEECCEEEEEEECCC
Confidence            445678888999999999999888899888889999999999999999 898 5999999999999998754

>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=99.00  E-value=8.2e-11  Score=95.73  Aligned_cols=68  Identities=10%  Similarity=0.089  Sum_probs=60.5

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ++...+++.+..+|+++|.|..+..+.++.++.++|||||+|.+.++| +||. +++..|.||+|+|..|
T Consensus         7 l~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           7 LSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECCC
T ss_pred             CCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeEC
Confidence            445678889999999999999998898888888999999999999999 8885 8999999999999864

>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=98.99  E-value=2.3e-10  Score=95.30  Aligned_cols=77  Identities=18%  Similarity=0.277  Sum_probs=65.5

Q ss_pred             CCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc-CCccCC
Q 048615          462 NRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS-GKSWQG  540 (634)
Q Consensus       462 nr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~-g~~~~g  540 (634)
                      -+.++|+| ++||..++ +++|++||..||.|.+|.+.....       ..++ +.|||+|.+..+|++|+.. |..|.|
T Consensus         4 ~~~rtvfV-~nlp~~~t-e~~l~~~F~~~G~v~~v~l~~~~~-------~~~k-G~afV~f~~~e~a~~al~~~~~~~~g   73 (85)
T d1zh5a2           4 VKNRSVYI-KGFPTDAT-LDDIKEWLEDKGQVLNIQMRRTLH-------KAFK-GSIFVVFDSIESAKKFVETPGQKYKE   73 (85)
T ss_dssp             HHTTEEEE-ECCCTTCC-HHHHHHHHTTSCCEEEEEEEECTT-------CCEE-EEEEEEESCHHHHHHHHTCCCCEETT
T ss_pred             CCcCEEEE-ECCCCCCC-HHHHHHHHHHhcccccceeeeecc-------CCcc-eEEEEEEcCHHHHHHHHHHCCCEECC
Confidence            35678999 89999998 999999999999999999865431       1122 6999999999999999854 889999


Q ss_pred             ceeEEEEe
Q 048615          541 HDLQFTWL  548 (634)
Q Consensus       541 ~~l~l~W~  548 (634)
                      +.|.+.|-
T Consensus        74 ~~l~v~~~   81 (85)
T d1zh5a2          74 TDLLILFK   81 (85)
T ss_dssp             EECEEEEG
T ss_pred             EEEEEEEc
Confidence            99999994

>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=98.99  E-value=6.3e-10  Score=97.15  Aligned_cols=75  Identities=16%  Similarity=0.211  Sum_probs=65.6

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g~  541 (634)
                      +++|+| ++||..++ +++|+++|.+||+|.+|.+..+.         .++ ++|||+|.+..+|++|+.  +|..|.|+
T Consensus         7 ~r~l~V-~nLp~~~t-e~~l~~~F~~~G~v~~i~~~~~~---------~~k-G~afV~f~~~~~A~~Ai~~l~g~~~~gr   74 (114)
T d2f9da1           7 NRILYI-RNLPYKIT-AEEMYDIFGKYGPIRQIRVGNTP---------ETR-GTAYVVYEDIFDAKNACDHLSGFNVCNR   74 (114)
T ss_dssp             CSEEEE-ESCCTTCC-HHHHHHHHHTTSCEEEEEEECST---------TTT-TEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEE-ECCCCCCC-HHHHHHHHhhcCCeEeecccccC---------CcC-CeEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            568999 89999997 99999999999999999987543         122 699999999999999985  79999999


Q ss_pred             eeEEEEeCC
Q 048615          542 DLQFTWLMP  550 (634)
Q Consensus       542 ~l~l~W~~~  550 (634)
                      .|++.|..+
T Consensus        75 ~l~V~~a~~   83 (114)
T d2f9da1          75 YLVVLYYNA   83 (114)
T ss_dssp             ECEEEECCH
T ss_pred             EEEEEEcCC
Confidence            999999653

>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=98.98  E-value=5.1e-11  Score=102.10  Aligned_cols=80  Identities=18%  Similarity=0.184  Sum_probs=68.8

Q ss_pred             CCcccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           73 NDLPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        73 ~~~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +.++|+| +....+++.+..+|+++|.|..+..+....++.++|||||+|.+.++| +||..|||..|.||+|+|.++.+
T Consensus        19 ~tl~V~n-Lp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak~   97 (102)
T d2cpxa1          19 KVLYLKN-LSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN   97 (102)
T ss_dssp             SEEEEEC-CCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             CEEEEeC-CCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCCC
Confidence            4455655 566778889999999999988887777776778899999999999999 99999999999999999999987


Q ss_pred             cC
Q 048615          152 KN  153 (634)
Q Consensus       152 k~  153 (634)
                      +.
T Consensus        98 k~   99 (102)
T d2cpxa1          98 KK   99 (102)
T ss_dssp             CS
T ss_pred             cc
Confidence            54

>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=98.98  E-value=2.1e-10  Score=98.83  Aligned_cols=83  Identities=18%  Similarity=0.220  Sum_probs=68.0

Q ss_pred             cCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          460 LDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       460 lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      .|.-.++|+| ++||..++ +++|+++|.+||+|.+|.+..+..  +    ..++ ++|||+|.++.+|++|+.  +|..
T Consensus         4 ~~~~~rtl~V-~nLp~~~t-e~~l~~~f~~~G~i~~v~i~~~~~--t----g~~~-g~afV~f~~~~~a~~ai~~l~~~~   74 (104)
T d1p1ta_           4 VDRSLRSVFV-GNIPYEAT-EEQLKDIFSEVGPVVSFRLVYDRE--T----GKPK-GYGFCEYQDQETALSAMRNLNGRE   74 (104)
T ss_dssp             SHHHHSCEEE-ESCCTTSC-HHHHHHHHHTTSCCSEEEEEEETT--T----TEEE-EEEEEECSCHHHHHHHHHHSSSBS
T ss_pred             CCCCCCEEEE-ECCCCcCC-HHHHHHhhhccccccccccccccc--e----eccC-CceEEEECCHHHHHHHHHHcCCCE
Confidence            3455678999 89999997 999999999999999999864431  0    0112 589999999999999985  5999


Q ss_pred             cCCceeEEEEeCCC
Q 048615          538 WQGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~~g~~l~l~W~~~~  551 (634)
                      |.|+.|++.|..+.
T Consensus        75 ~~g~~i~V~~a~~~   88 (104)
T d1p1ta_          75 FSGRALRVDNAASE   88 (104)
T ss_dssp             CSSSCBEEEETTCT
T ss_pred             ECCEEEEEEECCCC
Confidence            99999999997654

>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=98.98  E-value=3.9e-10  Score=94.48  Aligned_cols=74  Identities=15%  Similarity=0.225  Sum_probs=62.5

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCccCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQGH  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~~g~  541 (634)
                      .++|+| ++||.+++ +++|+++|.+|| +..+.+...+             ++|||+|.+..+|++|+  ++|..|.|+
T Consensus         5 s~~i~V-~nLp~~~t-~~~l~~lF~~~G-~~~~~~~~~k-------------g~afV~f~~~~~A~~Ai~~ln~~~~~G~   68 (88)
T d1wg1a_           5 SSGILV-KNLPQDSN-CQEVHDLLKDYD-LKYCYVDRNK-------------RTAFVTLLNGEQAQNAIQMFHQYSFRGK   68 (88)
T ss_dssp             CCCEEE-ESCCSSCC-HHHHHHHTCSSC-CCCEEEEGGG-------------TEEEECCSCHHHHHHHHHHHTTEEETTE
T ss_pred             CCEEEE-eCCCCccC-hHHHHHHHHhcC-ceeeeeeccC-------------CceEEEECCHHHHHHHHHHhCCCEECCE
Confidence            578999 89999998 999999999999 3344444444             79999999999999998  469999999


Q ss_pred             eeEEEEeCCCCC
Q 048615          542 DLQFTWLMPSSS  553 (634)
Q Consensus       542 ~l~l~W~~~~~~  553 (634)
                      +|++.|.++...
T Consensus        69 ~l~V~~a~~~~~   80 (88)
T d1wg1a_          69 DLIVQLQPTDAL   80 (88)
T ss_dssp             EEEEEECCCCCC
T ss_pred             EEEEEEcCCCCC
Confidence            999999865543

>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=98.97  E-value=2.4e-10  Score=96.00  Aligned_cols=72  Identities=11%  Similarity=0.125  Sum_probs=53.4

Q ss_pred             cccccCCCcccccccc---ccceeeecceeeeeccccccC---CCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEc
Q 048615           75 LPVRNAGTAAVSQNTS---MSVWGRIGSSKNRSNVKEKID---ATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEG  147 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~---~svfg~Ig~V~~~~~~k~k~~---~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~  147 (634)
                      ++|+| +....+++++   ..+|+++|.|..+.+++++..   ...+|||||+|.+.++| +||..|||..|+||+|+|.
T Consensus        11 vyV~n-Lp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          11 VFVVG-LSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             EEEEE-ECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             EEEEC-CCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            34444 4444555555   566777777766666665543   33458999999999999 9999999999999999984

>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=98.97  E-value=8.3e-10  Score=95.54  Aligned_cols=81  Identities=14%  Similarity=0.148  Sum_probs=69.3

Q ss_pred             CcceEEEcCCCCCCCCC----HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCC
Q 048615          463 RPTAFRIMPPLPVGFAD----VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGK  536 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~----~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~  536 (634)
                      -+++|+| +.|+..+.+    +++|+++|.+||+|.+|.+-...             ++|||+|.++.+|++|+.  +|.
T Consensus         4 ~~~~L~v-~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~-------------~~afV~f~~~~~A~~Ai~~lng~   69 (104)
T d1weya_           4 GSSGLIA-CVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-------------KRVRINFSNPLSAADARLRLHKT   69 (104)
T ss_dssp             CCCEEEE-ECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-------------TEEEEECSSTTHHHHHHHTSTTS
T ss_pred             CCceEEE-EeCCchhcCcHHHHHHHHHHhcccccceEEEEecCC-------------CEEEEEECCHHHHHHHHHHhccc
Confidence            3567999 899988632    36799999999999999998765             799999999999999996  599


Q ss_pred             ccCCceeEEEEeCCCCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSSNDL  557 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~~~~  557 (634)
                      .|.|+.|++.|..+....+..
T Consensus        70 ~~~g~~l~v~~a~~~~~~~~~   90 (104)
T d1weya_          70 EFLGKEMKLYFAQTLHIGSSH   90 (104)
T ss_dssp             EETTEECEEECCCCSSCCSCC
T ss_pred             ccCCCEeEEeecccCCCCCcc
Confidence            999999999999887765444

>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=98.97  E-value=1.2e-09  Score=92.68  Aligned_cols=83  Identities=14%  Similarity=0.151  Sum_probs=65.8

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccc-eeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHHc----CCcc
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGD-LASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFLS----GKSW  538 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGe-i~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~~----g~~~  538 (634)
                      +++|+| |+||..++ +++|+++|.+||+ |.+|.+..+..     +...++ ++|||+|.++.+|++|+..    +..+
T Consensus         1 n~rLyV-~nLp~~~t-e~~l~~~f~~~g~~i~~v~~~~~~~-----~~~~~r-g~aFV~F~~~~~A~~Ai~~l~~~~~~~   72 (96)
T d2disa1           1 NCRLFI-GGIPKMKK-REEILEEIAKVTEGVLDVIVYASAA-----DKMKNR-GFAFVEYESHRAAAMARRKLMPGRIQL   72 (96)
T ss_dssp             SEEEEE-ECCCTTSC-HHHHHHHHHHHSTTEEEEECCSSSC-----TTTTTC-CEEEEEESSHHHHHHHHTTTTTCCSCB
T ss_pred             CCEEEE-cCCCCcCC-HHHHHHHHHHhCCcceEEEEeeecc-----ccccCC-CeEEEEEcCHHHHHHHHHHHcCCCeEE
Confidence            468999 89999997 8999999999997 99999875431     111222 6999999999999999843    3455


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|++.|..|....
T Consensus        73 ~g~~i~V~~A~p~~~~   88 (96)
T d2disa1          73 WGHQIAVDWAEPEIDV   88 (96)
T ss_dssp             TTBCCEEEESCSSCST
T ss_pred             CCEEEEEEEcCCCCCC
Confidence            7899999999876543

>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=98.96  E-value=8e-10  Score=91.73  Aligned_cols=77  Identities=14%  Similarity=0.131  Sum_probs=64.4

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCce
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHD  542 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~  542 (634)
                      .++|+| |+||.+++ +++|++||.+||+|.+|.+.-+..       .-...++|||+|.+..+|++|+. +|..|.|+.
T Consensus         6 ~~~lfV-~nlp~~~t-e~~l~~~F~~~G~i~~v~i~~d~~-------tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~   76 (84)
T d1l3ka1           6 LRKLFI-GGLSFETT-DESLRSHFEQWGTLTDCVVMRDPN-------TKRSRGFGFVTYATVEEVDAAMNARPHKVDGRV   76 (84)
T ss_dssp             GGEEEE-ESCCTTCC-HHHHHHHHGGGSCEEEEEEEECTT-------TCCEEEEEEEEESSHHHHHHHHHTCSCEETTEE
T ss_pred             CcEEEE-ECCCCCCC-HHHHHHHHHhhccccceeeccccc-------CCCcccEEEEEEcCHHHHHHHHHhCCCEECCEE
Confidence            478999 89999997 999999999999999999864431       11122799999999999999985 588999999


Q ss_pred             eEEEEeC
Q 048615          543 LQFTWLM  549 (634)
Q Consensus       543 l~l~W~~  549 (634)
                      |++.+..
T Consensus        77 i~V~~A~   83 (84)
T d1l3ka1          77 VEPKRAV   83 (84)
T ss_dssp             CEEEECC
T ss_pred             EEEEeee
Confidence            9998753

>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=98.96  E-value=8.9e-10  Score=89.53  Aligned_cols=70  Identities=16%  Similarity=0.167  Sum_probs=60.8

Q ss_pred             EEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCccCCceeE
Q 048615          467 FRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSWQGHDLQ  544 (634)
Q Consensus       467 l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~~g~~l~  544 (634)
                      |+| ++||.+++ +++|+++|.+|| +..+.+....             ++|||+|.++.+|++|+  ++|..|.|+.|+
T Consensus         1 i~V-~nLp~~~t-~~~l~~~F~~~g-~~~~~~~~~~-------------g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~   64 (75)
T d1wi6a1           1 ILI-RGLPGDVT-NQEVHDLLSDYE-LKYCFVDKYK-------------GTAFVTLLNGEQAEAAINTFHQSRLRERELS   64 (75)
T ss_dssp             EEE-ECCCTTCC-HHHHHHHTTTSC-EEEEEEETTT-------------TEEEEEESSHHHHHHHHHHHTTEESSSCEEE
T ss_pred             CEE-eCCCCcCC-HHHHHHHHhccc-ccceeecccc-------------eeEEEEECCHHHHHHHHHHhCCccCCCCEEE
Confidence            688 89999998 999999999999 6666665544             79999999999999998  579999999999


Q ss_pred             EEEeCCCC
Q 048615          545 FTWLMPSS  552 (634)
Q Consensus       545 l~W~~~~~  552 (634)
                      +.|.+..+
T Consensus        65 V~~a~~d~   72 (75)
T d1wi6a1          65 VQLQPTDA   72 (75)
T ss_dssp             EEECCSTT
T ss_pred             EEEeCCCC
Confidence            99986543

>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=98.96  E-value=5.8e-11  Score=97.29  Aligned_cols=68  Identities=12%  Similarity=0.093  Sum_probs=58.8

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ++...+++.+..+|+++|.|..+..++++.++.++|||||+|.+.++| +||. ||++.|+||+|+|+.|
T Consensus         8 Lp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           8 LSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            345567788888888888888887888888888999999999999999 8885 7999999999999865

>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=98.96  E-value=2.8e-10  Score=97.74  Aligned_cols=80  Identities=16%  Similarity=0.206  Sum_probs=67.2

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--HcCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--LSGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~~g~~~  538 (634)
                      +..+|+|+| ++||..++ +++|+++|.+||+|.++.+.....       ..+ .+++||+|.+..+|++|+  ++|..|
T Consensus        15 ~~~~~~lfV-~nLp~~~t-e~~L~~~F~~~G~i~~~~~~~~~~-------~~~-~g~afV~f~~~~~A~~Ai~~lng~~i   84 (101)
T d1x5oa1          15 EQDPTNLYI-SNLPLSMD-EQELENMLKPFGQVISTRILRDSS-------GTS-RGVGFARMESTEKCEAVIGHFNGKFI   84 (101)
T ss_dssp             CCCTTEEEE-ESCCTTCC-HHHHHHTTTTTSCEEEEEEEECSS-------SCE-EEEEEEEESCHHHHHHHHHHHBTCCC
T ss_pred             cCCCCEEEE-eCCCCCCC-HHHHHHHHhhcccccceeeecccc-------ccc-ccceeEEeCCHHHHHHHHHHhCCCEE
Confidence            455789999 89999997 999999999999999998765431       112 268999999999999998  479999


Q ss_pred             CCceeEEEEeCC
Q 048615          539 QGHDLQFTWLMP  550 (634)
Q Consensus       539 ~g~~l~l~W~~~  550 (634)
                      .|+.|.+.|..|
T Consensus        85 ~gr~~~v~~~~P   96 (101)
T d1x5oa1          85 KTPPGVSAPTEP   96 (101)
T ss_dssp             CCCTTSCCCSSC
T ss_pred             CCcCCccCCCCC
Confidence            999998888665

>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=98.95  E-value=8.5e-10  Score=92.67  Aligned_cols=74  Identities=11%  Similarity=0.031  Sum_probs=64.8

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCCccC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGKSWQ  539 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~~~~  539 (634)
                      .++|+| ++||.+...+++|+++|..||+|.+|.+....             ++|||.|.++.+|++|+.    ++..+.
T Consensus         8 sr~v~v-~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k-------------~~afV~f~~~~~A~~A~~~l~~~~~~~~   73 (89)
T d1x4da1           8 RRVVHI-MDFQRGKNLRYQLLQLVEPFGVISNHLILNKI-------------NEAFIEMATTEDAQAAVDYYTTTPALVF   73 (89)
T ss_dssp             CCEEEE-ESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS-------------SCEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CcEEEE-ECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc-------------eEEEEEEcchhhHHHHHHHHhhCCCccC
Confidence            467999 89998743389999999999999999998776             799999999999999985    477899


Q ss_pred             CceeEEEEeCCC
Q 048615          540 GHDLQFTWLMPS  551 (634)
Q Consensus       540 g~~l~l~W~~~~  551 (634)
                      |++|+|.|.++.
T Consensus        74 gr~l~V~~s~~~   85 (89)
T d1x4da1          74 GKPVRVHLSQKY   85 (89)
T ss_dssp             TEECEEEEECCC
T ss_pred             CceEEEEECCCc
Confidence            999999997653

>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=98.95  E-value=3e-09  Score=91.30  Aligned_cols=85  Identities=14%  Similarity=0.130  Sum_probs=66.0

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      +.-+++|+| ++||..++ +++|++||.+|| |..|.+.....      ..-...++|||+|.+..+|++|+. +|..|.
T Consensus        12 ~~p~~~v~V-~nLp~~~t-e~~l~~~f~~~g-~~~~~~~~~~~------~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~   82 (104)
T d1wi8a_          12 KSPPYTAFL-GNLPYDVT-EESIKEFFRGLN-ISAVRLPREPS------NPERLKGFGYAEFEDLDSLLSALSLNEESLG   82 (104)
T ss_dssp             SSSCEEEEE-ESCCSSCC-HHHHHHHTTTSC-EEEEECCBCSS------CTTSBCSCEEEEESSHHHHHHHHGGGTCEET
T ss_pred             CCCCCEEEE-eCCCCcCC-HHHHHHHHHHhc-cccceeeeeec------cCCCcceeeeEEECCHHHHHHHHHcCCCEEC
Confidence            445789999 89999997 999999999999 66666543321      011112699999999999987764 599999


Q ss_pred             CceeEEEEeCCCCCC
Q 048615          540 GHDLQFTWLMPSSSS  554 (634)
Q Consensus       540 g~~l~l~W~~~~~~~  554 (634)
                      |+.|+|.|..+....
T Consensus        83 gr~l~V~~a~~~~~~   97 (104)
T d1wi8a_          83 NKRIRVDVADQAQDK   97 (104)
T ss_dssp             TEECEEEECCCCCCC
T ss_pred             CEEEEEEECCCCCCC
Confidence            999999998776543

>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=98.93  E-value=5.8e-10  Score=94.70  Aligned_cols=77  Identities=14%  Similarity=0.204  Sum_probs=65.9

Q ss_pred             CcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          463 RPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       463 r~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      ..++|+| ++||..++ +++|++||.+||+|..|......            .+++||.|.+..+|++|+.  +|..|.|
T Consensus        15 ~~~~l~V-~nL~~~~t-e~~l~~~F~~~g~v~~~~~~~~~------------~~~afV~f~~~~~A~~A~~~l~~~~~~g   80 (96)
T d1fjca_          15 AARTLLA-KNLSFNIT-EDELKEVFEDALEIRLVSQDGKS------------KGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             GGGEEEE-ESCCSSCC-HHHHHHHHCSEEEECCEEETTEE------------EEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             CCCEEEE-eCCCCCCC-HHHHHHHHHhcccceeeeecCcc------------ccEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            3578999 89999997 99999999999999877643221            2789999999999999985  6999999


Q ss_pred             ceeEEEEeCCCCC
Q 048615          541 HDLQFTWLMPSSS  553 (634)
Q Consensus       541 ~~l~l~W~~~~~~  553 (634)
                      +.|+|.|..+..+
T Consensus        81 r~i~V~~a~~k~~   93 (96)
T d1fjca_          81 RSVSLYYTGEKGG   93 (96)
T ss_dssp             EEEEEEECSSSCC
T ss_pred             EEEEEEEeCCCCC
Confidence            9999999887654

>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=98.93  E-value=8.3e-10  Score=89.71  Aligned_cols=72  Identities=17%  Similarity=0.218  Sum_probs=62.3

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCcee
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDL  543 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l  543 (634)
                      |+|+| ++||..++ +++|+++|.+||.|.+|.+..+..         ..+..|||+|.+..+|++|+. +|+.|.|+.|
T Consensus         1 Ttv~V-~nlp~~~t-~~~l~~~F~~~G~I~~v~~~~~~~---------~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i   69 (75)
T d2ghpa2           1 TTVLV-KNLPKSYN-QNKVYKYFKHCGPIIHVDVADSLK---------KNFRFARIEFARYDGALAAITKTHKVVGQNEI   69 (75)
T ss_dssp             CEEEE-EEECTTCC-HHHHHHHHGGGSCEEEEEEEECTT---------SSSEEEEEEESSHHHHHHHHTTTTCEETTEEC
T ss_pred             CEEEE-ECCCCCCC-HHHHHHHHhcCCceEEEEEEeecc---------ccceEEEEEEcchHHhHHHHHhcCcEECCEEE
Confidence            78999 89999997 999999999999999999976542         123699999999999999985 4889999999


Q ss_pred             EEEE
Q 048615          544 QFTW  547 (634)
Q Consensus       544 ~l~W  547 (634)
                      .+.=
T Consensus        70 ~V~~   73 (75)
T d2ghpa2          70 IVSH   73 (75)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8863

>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=98.92  E-value=1.4e-09  Score=87.56  Aligned_cols=74  Identities=14%  Similarity=0.106  Sum_probs=62.5

Q ss_pred             eEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCceeE
Q 048615          466 AFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDLQ  544 (634)
Q Consensus       466 ~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l~  544 (634)
                      +|+| |+||.+++ +++|++||.+||.|..+.+.....      ...+ .++|||+|.+..+|++|+. +|..|.|+.|+
T Consensus         1 rlfV-~nLp~~~t-e~~l~~~F~~~G~i~~~~~~~~~~------~~~~-~~~afV~F~~~~~a~~al~~~~~~l~gr~i~   71 (75)
T d2msta_           1 KIFV-GGLSVNTT-VEDVKHYFEQFGKVDDAMLMFDKT------TNRH-RGFGFVTFESEDIVEKVCEIHFHEINNKMVE   71 (75)
T ss_dssp             CEEE-ECCCSSCC-HHHHHHHHHTTSCCSEECCBCCTT------CTTS-CCEEEEECSCHHHHHHHHHCSSCCBTTBCCE
T ss_pred             CEEE-eCCCCCCC-HHHHHHHHHHhCCcceeeeeeecc------cccc-CceeEEEECCHHHHHHHHhcCCCEECCeEEE
Confidence            4899 89999997 999999999999999998765431      1123 3799999999999999985 48999999999


Q ss_pred             EEEe
Q 048615          545 FTWL  548 (634)
Q Consensus       545 l~W~  548 (634)
                      +.|.
T Consensus        72 V~~A   75 (75)
T d2msta_          72 CKKA   75 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9884

>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=98.92  E-value=1.1e-09  Score=91.93  Aligned_cols=77  Identities=18%  Similarity=0.205  Sum_probs=63.4

Q ss_pred             cceEEEcCCCCCCCCCHHHH----HHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCc
Q 048615          464 PTAFRIMPPLPVGFADVAVL----KEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKS  537 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L----~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~  537 (634)
                      +++|+| ++||..++ +++|    .+||.+||+|.+|.+.....         + .++|||+|.++.+|++|+.  +|..
T Consensus         3 ~~tl~V-~nLp~~~t-~~dl~~~l~~~f~~~G~i~~i~~~~~~~---------~-~g~afV~F~~~~~A~~A~~~~~~~~   70 (91)
T d1nu4a_           3 NHTIYI-NNLNEKIK-KDELKKSLHAIFSRFGQILDILVSRSLK---------M-RGQAFVIFKEVSSATNALRSMQGFP   70 (91)
T ss_dssp             CSEEEE-ESCCTTSC-HHHHHHHHHHHHGGGSCEEEEECCHHHH---------H-TTCEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCEEEE-eCCCCCCC-HHHHHHHHHHHhcccccccceEEeeecc---------C-CCceEEEECCHHHHHHHHHHhCCCE
Confidence            468999 89999998 5555    46799999999999865321         1 2689999999999999994  6999


Q ss_pred             cCCceeEEEEeCCCC
Q 048615          538 WQGHDLQFTWLMPSS  552 (634)
Q Consensus       538 ~~g~~l~l~W~~~~~  552 (634)
                      |.|+.|++.|.++..
T Consensus        71 ~~g~~l~v~~ak~~~   85 (91)
T d1nu4a_          71 FYDKPMRIQYAKTDS   85 (91)
T ss_dssp             ETTEECEEEECSSCC
T ss_pred             ECCEEEEEEEeCCCc
Confidence            999999999987653

>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=98.91  E-value=2.4e-10  Score=93.32  Aligned_cols=68  Identities=4%  Similarity=0.025  Sum_probs=59.9

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ++...+++.+..+|.++|.+..+..+.++.++.++|||||+|.+.++| +|+ .|||..|+||+|+|+.|
T Consensus        10 Lp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al-~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2          10 IKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-IQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH-HCSCCEETTEECEEEEC
T ss_pred             CCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHH-HhCCCEECCEEEEEEEC
Confidence            455678889999999999998888888888888899999999999988 666 79999999999999866

>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=98.91  E-value=2.9e-09  Score=88.64  Aligned_cols=75  Identities=15%  Similarity=0.177  Sum_probs=63.4

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc-CC
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW-QG  540 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~-~g  540 (634)
                      +++|+| ++||..++ +++|+++|..||+|..+.+.....           .++|||.|.+..+|++|+.  +|..+ .|
T Consensus        10 s~tL~V-~NLp~~~t-e~~l~~~F~~~G~v~~~~~~~~~~-----------~~~afV~f~~~~~A~~A~~~l~~~~i~~g   76 (88)
T d2adca2          10 SATLHL-SNIPPSVS-EEDLKVLFSSNGGVVKGFKFFQKD-----------RKMALIQMGSVEEAVQALIDLHNHDLGEN   76 (88)
T ss_dssp             CSEEEE-ECCCTTCC-HHHHHHHHHTTSCCEEEEEECSSS-----------TTCEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             CCEEEE-ECCCCCCC-HHHHHHHhhccCCEEEEEEeeecc-----------cceeEEEECCHHHHHHHHHhccCCEecCC
Confidence            568999 89999997 899999999999998877654321           2689999999999999994  58887 58


Q ss_pred             ceeEEEEeCCC
Q 048615          541 HDLQFTWLMPS  551 (634)
Q Consensus       541 ~~l~l~W~~~~  551 (634)
                      +.|++.|.++.
T Consensus        77 ~~l~v~~sk~~   87 (88)
T d2adca2          77 HHLRVSFSKST   87 (88)
T ss_dssp             CBCEEEECSSC
T ss_pred             CEEEEEeCCCC
Confidence            99999997753

>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=98.89  E-value=1.7e-09  Score=93.40  Aligned_cols=74  Identities=22%  Similarity=0.314  Sum_probs=63.1

Q ss_pred             CCEEEEeCC--CCCCCC-------HHHHHHhhccCCCEEEEEEecCC--------CeEEEEeCCHHHHHHHHHcCCC-cc
Q 048615          176 LRTLFVNNV--PLKSNR-------REALLSHFQKFGEVVDIYIPLNS--------ERAFVQFSKREEAEAALKSPDA-VM  237 (634)
Q Consensus       176 ~~tLfVgnL--p~d~~t-------e~~L~~~FskfG~I~~v~v~~dk--------g~AFV~F~s~e~A~~Ai~~lng-~l  237 (634)
                      .+.|.|.||  |.+..+       .++|++.|++||.|.+|.|+++.        +++||+|.+.++|.+|+..|+| .+
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f   83 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKF   83 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCS
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCEE
Confidence            578999999  554222       35689999999999999997632        6999999999999999999999 89


Q ss_pred             CCeEEEEEeecC
Q 048615          238 GNRFIKLWWANR  249 (634)
Q Consensus       238 ~gR~IkV~wak~  249 (634)
                      +||.|+|.|..+
T Consensus        84 ~gR~v~v~f~~~   95 (104)
T d1o0pa_          84 ANRVVVTKYCDP   95 (104)
T ss_dssp             SSSCCEEEEECH
T ss_pred             CCeEEEEEEcCH
Confidence            999999999853

>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=98.88  E-value=4.1e-10  Score=95.00  Aligned_cols=80  Identities=19%  Similarity=0.121  Sum_probs=67.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccC
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQ  539 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~  539 (634)
                      +..+++|+| ++||..++ +++|+++|.+||.|.+|.+.+....       .+ .++|||+|.++.+|++|+. +|..|.
T Consensus        10 ~~~~~~ifV-~nL~~~~t-e~~l~~~F~~~G~i~~~~v~~~~~g-------~~-kg~afv~F~~~e~a~~Al~~~g~~~~   79 (91)
T d1fjeb1          10 STTPFNLFI-GNLNPNKS-VAELKVAISELFAKNDLAVVDVRTG-------TN-RKFGYVDFESAEDLEKALELTGLKVF   79 (91)
T ss_dssp             CSSSEEEEE-ECCCTTSC-HHHHHHHHHHHHHHHTCCCCEEEEE-------TT-TTEEEEEESSHHHHHHHHHGGGEEET
T ss_pred             CCCCcEEEE-eCccCcch-HHHHHHHHhcCCcEEEeeeeecCCC-------Cc-cEEeEEeeCCHHHHHHHHhcCCcEEC
Confidence            445778999 89999998 9999999999999998887543310       12 2799999999999999985 699999


Q ss_pred             CceeEEEEeCC
Q 048615          540 GHDLQFTWLMP  550 (634)
Q Consensus       540 g~~l~l~W~~~  550 (634)
                      |+.|+|.|.++
T Consensus        80 g~~i~V~~ak~   90 (91)
T d1fjeb1          80 GNEIKLEKPKG   90 (91)
T ss_dssp             TEEEEEECCCC
T ss_pred             CEEEEEEecCC
Confidence            99999999765

>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=98.88  E-value=1.8e-09  Score=93.50  Aligned_cols=79  Identities=18%  Similarity=0.212  Sum_probs=65.8

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~  538 (634)
                      .....+|+| +.||..++ +++|+++|.+||+|.+|.+....          + .++|||+|.++.+|++|+.  +|..|
T Consensus         4 ~s~~~~v~V-~NL~~~vt-e~~L~~~F~~~G~i~~~~i~~~~----------~-~g~aFV~f~~~e~A~~Ai~~ln~~~l   70 (108)
T d2adba1           4 QSPVLRIIV-ENLFYPVT-LDVLHQIFSKFGTVLKIITFTKN----------N-QFQALLQYADPVSAQHAKLSLDGQNI   70 (108)
T ss_dssp             CCCEEEEES-CSCCSTTH-HHHHHHHHTTTSCEEEEEEEEET----------T-EEEEEEEESCHHHHHHHHHHHHSCCS
T ss_pred             CCCeEEEEE-eCcCCCCC-HHHHHHHHccCCcEEEEEEEeeC----------C-CCeEEEEECCHHHHHHHHHHHCCCEe
Confidence            345677888 89999998 99999999999999999986443          1 2689999999999999984  58887


Q ss_pred             --CCceeEEEEeCCCC
Q 048615          539 --QGHDLQFTWLMPSS  552 (634)
Q Consensus       539 --~g~~l~l~W~~~~~  552 (634)
                        .|..|++.|.++..
T Consensus        71 ~~~~~~l~v~~s~~~~   86 (108)
T d2adba1          71 YNACCTLRIDFSKLTS   86 (108)
T ss_dssp             STTCCCCEEEECSSCS
T ss_pred             ccCCcEEEEEecCCcc
Confidence              46899999977654

>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=98.86  E-value=2.3e-09  Score=91.66  Aligned_cols=74  Identities=15%  Similarity=0.160  Sum_probs=64.6

Q ss_pred             CcceEEEcCCCCCC-CCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH----cCCc
Q 048615          463 RPTAFRIMPPLPVG-FADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL----SGKS  537 (634)
Q Consensus       463 r~t~l~V~~~l~~~-~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~----~g~~  537 (634)
                      ..++|+| ++||.+ ++ +++|+++|..||.|..|.+...+             ++|||.|.+..+|++|+.    ++..
T Consensus        17 ~~~~l~v-~nLp~~~~t-e~~l~~~F~~fG~V~~v~~~~~k-------------~~afV~f~~~~~A~~Ai~~~~~~~~~   81 (99)
T d1x4fa1          17 LGRVIHL-SNLPHSGYS-DSAVLKLAEPYGKIKNYILMRMK-------------SQAFIEMETREDAMAMVDHCLKKALW   81 (99)
T ss_dssp             CCCEEEE-ESCCCSSCC-SHHHHTTTTTTSCCSEEEEETTT-------------TEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCEEEE-eCCcCCccC-HHHHHhhhccccceeEEEEeecC-------------CcEEEEecchHHHHHHHHHHhcCCce
Confidence            3568999 899975 65 89999999999999999998766             799999999999999984    4778


Q ss_pred             cCCceeEEEEeCCC
Q 048615          538 WQGHDLQFTWLMPS  551 (634)
Q Consensus       538 ~~g~~l~l~W~~~~  551 (634)
                      |.|+.|++.|.+..
T Consensus        82 ~~gr~l~V~~s~~~   95 (99)
T d1x4fa1          82 FQGRCVKVDLSEKY   95 (99)
T ss_dssp             SSSSCCEEEEECSC
T ss_pred             ECCEEEEEEEcCCc
Confidence            99999999997643

>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=98.86  E-value=3e-10  Score=94.38  Aligned_cols=74  Identities=11%  Similarity=0.043  Sum_probs=60.2

Q ss_pred             cccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           75 LPVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        75 ~~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      +.|+| +....+++++..+|..++.+.....+....++.++|||||+|.+.++| +||..|||..|+||+|+|.++
T Consensus        12 l~v~n-Lp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1          12 IKVQN-MPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             EEEES-CCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             EEEEC-CCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            34544 566788888999998888875544445555667899999999999999 999999999999999999864

>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=98.85  E-value=3.6e-10  Score=92.11  Aligned_cols=68  Identities=6%  Similarity=-0.015  Sum_probs=59.2

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      ++...+++.+..+|+++|.|..+..+.++.++.++|||||+|.+.++| +|| ++++..++|+.|.|+.|
T Consensus         7 Lp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al-~~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           7 LSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM-EKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHT-TCSSCCBTTBCCEEECC
T ss_pred             CCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHH-hhCCCEECCEEeEEEEC
Confidence            344668888999999999999888898888889999999999999999 888 56888999999999864

>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=98.84  E-value=2.3e-10  Score=91.90  Aligned_cols=65  Identities=8%  Similarity=0.125  Sum_probs=58.0

Q ss_pred             CCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEE
Q 048615           81 GTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRII  145 (634)
Q Consensus        81 ~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~  145 (634)
                      ++...+++.+..+|.++|.|..++.+..+.++.++|||||+|.+.++| +|+..|||..|+||.|+
T Consensus         6 Lp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           6 LQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             CCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            445668888999999999998888888888888899999999999999 99999999999999875

>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=98.76  E-value=1.1e-09  Score=94.84  Aligned_cols=63  Identities=14%  Similarity=0.143  Sum_probs=52.4

Q ss_pred             cccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccC
Q 048615           86 SQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDA  149 (634)
Q Consensus        86 s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a  149 (634)
                      .++.+..+|.++|.|..+++++.. ++.++|||||+|.+.++| +|+..|||++|+||+|+|.+.
T Consensus        40 ~ed~l~e~f~k~G~I~~v~I~~~~-~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          40 FEEVFTEMEEKYGEVEEMNVCDNL-GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHTCCEEEEEECCSS-SSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             hHHHHHHHhccCCCEEEEEeecCC-CCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            445567777777777777766554 457799999999999999 999999999999999999864

>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=98.76  E-value=5.7e-09  Score=91.32  Aligned_cols=70  Identities=16%  Similarity=0.124  Sum_probs=57.4

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecCh-HHHHHHHH--cCCccCCc
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTR-RSAERAFL--SGKSWQGH  541 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR-~~AE~A~~--~g~~~~g~  541 (634)
                      ..++| |+||..++ +++|+++|.+||+|.+|.+....             +|+||+|.++ .+|..|+.  +|..+.+.
T Consensus        12 ~~~fv-gnL~~~~t-ee~Lk~~F~~fG~V~~v~i~~~k-------------g~gfV~F~~~~~~A~~a~~~~~~~~l~~~   76 (113)
T d1owxa_          12 LLKFS-GDLDDQTC-REDLHILFSNHGEIKWIDFVRGA-------------KEGIILFKEKAKEALGKAKDANNGNLQLR   76 (113)
T ss_dssp             EEEEE-ESCCSSCC-HHHHHHHTCSSCCEEEEECCTTC-------------SEEEEEESSCHHHHHHHHHHTTTSCBCTT
T ss_pred             eEEEE-CCCCCCCC-HHHHHHHHHhcCChheEEEecCC-------------ceEEEEecCcHHHHHHHHHHhcCCceecC
Confidence            44577 99999998 99999999999999999998776             7999999998 56777765  47777766


Q ss_pred             eeEEEEeC
Q 048615          542 DLQFTWLM  549 (634)
Q Consensus       542 ~l~l~W~~  549 (634)
                      .+.+.|..
T Consensus        77 ~~~v~~~~   84 (113)
T d1owxa_          77 NKEVTWEV   84 (113)
T ss_dssp             SSSEEEEE
T ss_pred             ceEEEEee
Confidence            66666643

>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=98.75  E-value=4.2e-08  Score=84.11  Aligned_cols=84  Identities=14%  Similarity=0.118  Sum_probs=67.4

Q ss_pred             CCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEE-ecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCcc
Q 048615          461 DNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVE-LEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSW  538 (634)
Q Consensus       461 Dnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~-~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~  538 (634)
                      +.....|+| ++||-.++ +++|++||.+||.|..+. +.+..        .....+.|||.|.++.+|++|+. ++..|
T Consensus        12 ~~~~~~v~v-~nLP~~~t-e~dI~~~F~~~g~v~~~v~~~~~~--------~~~~kG~afV~F~~~e~a~~a~~~~~~~i   81 (104)
T d1wg5a_          12 TANDGFVRL-RGLPFGCS-KEEIVQFFSGLEIVPNGMTLPVDF--------QGRSTGEAFVQFASQEIAEKALKKHKERI   81 (104)
T ss_dssp             CSCCCEEEE-ESCCTTCC-HHHHHHHTTTCCEEEEEEECCBCS--------SSCBCSEEEEEESSHHHHHHHHTTTTCCS
T ss_pred             CCCCcEEEE-eCCCCCCC-HHHHHHHHHhcCCceEEEEEEeCC--------CCCcceEEEEEeCCHHHHHHHHhhCCCEE
Confidence            445667999 89999998 999999999999988744 33322        11233799999999999999985 48899


Q ss_pred             CCceeEEEEeCCCCCC
Q 048615          539 QGHDLQFTWLMPSSSS  554 (634)
Q Consensus       539 ~g~~l~l~W~~~~~~~  554 (634)
                      .|+.|+|.|.++....
T Consensus        82 ~gR~i~V~~~~~~~~~   97 (104)
T d1wg5a_          82 GHRYIEIFKSSRAEVR   97 (104)
T ss_dssp             SSSCCEEEEECTTTSC
T ss_pred             cceEEEEEECCHHHhc
Confidence            9999999999877543

>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=98.73  E-value=2.6e-08  Score=85.24  Aligned_cols=86  Identities=17%  Similarity=0.175  Sum_probs=67.3

Q ss_pred             cccCCCcceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCC
Q 048615          458 YKLDNRPTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGK  536 (634)
Q Consensus       458 ~~lDnr~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~  536 (634)
                      ..-.+.+.+|+| .+||..++ +++|++||..||.+ .|.+..+.        +....+.|||.|.+..+|++|+. ++.
T Consensus         9 ~~~~~~~~~v~v-~nLp~~~t-e~dl~~~F~~~~~~-~v~~~~~~--------~g~~~G~afVeF~~~~~a~~Al~~~~~   77 (102)
T d1weza_           9 SFQSTTGHCVHM-RGLPYRAT-ENDIYNFFSPLNPM-RVHIEIGP--------DGRVTGEADVEFATHEDAVAAMAKDKA   77 (102)
T ss_dssp             SCCCSSSCEEEE-ESCCTTCC-HHHHHHSSCSCCCS-EEEEEESS--------SSCEEEEEEEECSSSHHHHHHHTTSSC
T ss_pred             CCcCCCCCEEEE-eCCCCcCC-HHHHHHHHhccCcc-eeeeEEec--------CCcceEEEEEEECCHHHHHHHHHcCCC
Confidence            344556678999 79999998 99999999999854 55544332        11123789999999999999985 599


Q ss_pred             ccCCceeEEEEeCCCCCC
Q 048615          537 SWQGHDLQFTWLMPSSSS  554 (634)
Q Consensus       537 ~~~g~~l~l~W~~~~~~~  554 (634)
                      .|.|+.|+|.|.++....
T Consensus        78 ~i~gR~I~V~~s~~~~~~   95 (102)
T d1weza_          78 NMQHRYVELFLNSTAGTS   95 (102)
T ss_dssp             CSSSSCCEEEEECCCCCC
T ss_pred             EECCEEEEEEEcCCCCCC
Confidence            999999999998876543

>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=98.72  E-value=2.1e-09  Score=92.15  Aligned_cols=74  Identities=9%  Similarity=0.057  Sum_probs=59.7

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQ  151 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~  151 (634)
                      +|+| +....+++.+..+|..+|.+.....+....++.++|||||+|.+.++| +|| .|||..|+||+|+|.++..
T Consensus        12 ~v~n-Lp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al-~~n~~~i~gr~i~V~~~~~   86 (103)
T d2cpya1          12 HITN-IPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE-RLHRKKLNGREAFVHVVTL   86 (103)
T ss_dssp             EEES-CCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHG-GGCSEEETTEEEEEEEECH
T ss_pred             EEeC-CCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHH-hcCCCeECCcEEEEEECCH
Confidence            3444 556678888999999888876544455555667899999999999999 898 5999999999999988754

>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=98.71  E-value=1.5e-08  Score=87.01  Aligned_cols=73  Identities=14%  Similarity=0.199  Sum_probs=58.4

Q ss_pred             cceEEEc-CCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCcc-C
Q 048615          464 PTAFRIM-PPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSW-Q  539 (634)
Q Consensus       464 ~t~l~V~-~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~-~  539 (634)
                      +++|+|. |+||.+++ +++|+++|.+||+|..|.+....             ++|||.|.++.+|++|+.  +|+.| .
T Consensus        18 t~~l~V~ng~L~~~vt-e~~L~~~F~~~G~i~~i~~~~~k-------------~~aFV~f~~~e~A~~A~~~lng~~i~~   83 (101)
T d2cq2a1          18 TQSLVVANGGLGNGVS-RNQLLPVLEKCGLVDALLMPPNK-------------PYSFARYRTTEESKRAYVTLNGKEVVD   83 (101)
T ss_dssp             CSEEEEETCTGGGTCC-HHHHHHHHHHHSCEEEEECCTTC-------------SCEEEEESSHHHHHHHHHHTTTCEEEC
T ss_pred             CceEEEECCCCCCCCC-HHHHHHHHHhhCcccEEeeccCc-------------cEEEEEECCHHHHHHHHHHhCCCCCCC
Confidence            3445552 67999998 99999999999999999998776             799999999999999985  58876 3


Q ss_pred             Cc----eeEEEEeCC
Q 048615          540 GH----DLQFTWLMP  550 (634)
Q Consensus       540 g~----~l~l~W~~~  550 (634)
                      +.    .|.++|+..
T Consensus        84 ~~~~~i~~~~~~~~~   98 (101)
T d2cq2a1          84 DLGQKITLYLNFVEK   98 (101)
T ss_dssp             TTSCEEECEEEEESC
T ss_pred             CCCcEEEEEEEeeee
Confidence            33    445566543

>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=98.68  E-value=1.7e-08  Score=83.26  Aligned_cols=66  Identities=14%  Similarity=0.271  Sum_probs=54.3

Q ss_pred             cceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCc-
Q 048615          464 PTAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGH-  541 (634)
Q Consensus       464 ~t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~-  541 (634)
                      .+.|+| +++|.+.+  +++++||.+||+|.+|.+...+             ++++|+|.++.+|++|+. +|..|.|+ 
T Consensus         4 ~~wV~V-~G~p~~~~--~~il~~F~~~G~I~~~~~~~~~-------------~~~fV~f~~~~~A~~Al~~nG~~~~g~~   67 (81)
T d1wwha1           4 DTWVTV-FGFPQASA--SYILLQFAQYGNILKHVMSNTG-------------NWMHIRYQSKLQARKALSKDGRIFGESI   67 (81)
T ss_dssp             GGEEEE-ECCCGGGH--HHHHHHHHTTSCEEEEEECSSS-------------SEEEEEESSHHHHHHHHTTTTCEETTTE
T ss_pred             ccEEEE-ECCChHHH--HHHHHHHHhhhhhheEEecCCC-------------CEEEEEEcccHHHHHHHhcCCCeECCcE
Confidence            467999 68888775  4566799999999999987665             799999999999999985 59999886 


Q ss_pred             eeEE
Q 048615          542 DLQF  545 (634)
Q Consensus       542 ~l~l  545 (634)
                      .|.+
T Consensus        68 ~vgV   71 (81)
T d1wwha1          68 MIGV   71 (81)
T ss_dssp             ECEE
T ss_pred             EEEE
Confidence            3444

>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=98.58  E-value=4.7e-09  Score=91.55  Aligned_cols=75  Identities=9%  Similarity=0.107  Sum_probs=61.6

Q ss_pred             ccccCCCccccccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCccc
Q 048615           76 PVRNAGTAAVSQNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQK  152 (634)
Q Consensus        76 ~v~n~~~~~~s~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k  152 (634)
                      +|+| +....+.+++..+|+.+|.+..+..+....++.++|||||+|.+.++| +|+ .|||..|+||.|.|..+...
T Consensus        22 ~v~n-Lp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al-~~~~~~i~gR~i~V~~~~~~   97 (112)
T d1wela1          22 YLKG-LPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAAL-CRHKQYMGNRFIQVHPITKK   97 (112)
T ss_dssp             EEEC-CCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHH-TSCSBCSTTSCBEEEEECHH
T ss_pred             EEec-CCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHH-HcCCCcCCCEEEEEEEcChH
Confidence            4444 666778888999999998877665666666778899999999999999 777 69999999999999877543

>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=98.56  E-value=3.9e-09  Score=88.26  Aligned_cols=82  Identities=15%  Similarity=0.236  Sum_probs=63.9

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCcee
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDL  543 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l  543 (634)
                      ++|+| |+||.+++ +++|+++|.+||.|.++.+......-+. ....++ +.|||+|.++.+|++|+. +|..|.|+.|
T Consensus         2 RrlyV-gNLp~~~t-e~~l~~~F~~~g~~~~~~~~~~~~~~~~-~~~~~k-g~afV~f~~~e~a~~a~~l~g~~~~Gr~l   77 (90)
T d1u2fa_           2 RRLYV-GNIPFGIT-EEAMMDFFNAQMRLGGLTQAPGNPVLAV-QINQDK-NFAFLEFRSVDETTQAMAFDGIIFQGQSL   77 (90)
T ss_dssp             CEEEE-CSCCTTCC-TTHHHHHHHHHHTTTTSCCSSSCSEEEC-CEETTT-TEEEEEESSCTTTTTGGGGSSCCSSSSCC
T ss_pred             CEEEE-cCCCCccc-hHHHHHHHHhhCcEEEEEEeccceeeec-ccCCCc-eEEEEEeCCHHHHHHHHhhCCcEECCEEE
Confidence            57999 99999998 9999999999999988877543311110 011122 789999999999999874 6999999999


Q ss_pred             EEEEeCC
Q 048615          544 QFTWLMP  550 (634)
Q Consensus       544 ~l~W~~~  550 (634)
                      ++.|.+.
T Consensus        78 ~V~r~k~   84 (90)
T d1u2fa_          78 KIRRPHD   84 (90)
T ss_dssp             CCBCTTC
T ss_pred             EECCCCC
Confidence            9987544

>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=98.56  E-value=1.6e-08  Score=86.47  Aligned_cols=63  Identities=10%  Similarity=0.130  Sum_probs=53.4

Q ss_pred             ccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCcccC
Q 048615           87 QNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAIQKN  153 (634)
Q Consensus        87 ~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~~k~  153 (634)
                      .++++..|+++|.|..+..+..+    .+|||||+|.+.++| +|+..|||.+|+||+|+|.+..++.
T Consensus        33 ~edv~~~~~~~G~V~~v~~~~~~----~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v~~~~g~~   96 (99)
T d2dita1          33 REDLRVECSKFGQIRKLLLFDRH----PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTT   96 (99)
T ss_dssp             HHHHHHHGGGTSCCSEEEEETTC----TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCC
T ss_pred             HHHHHHHhcCcccEEEEeccCCC----CccEEEEEECCHHHHHHHHHHhCCcEECCEEEEEEEeCCcC
Confidence            45678889999998887665443    379999999999999 9999999999999999999886543

>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=98.23  E-value=2.5e-06  Score=72.88  Aligned_cols=81  Identities=21%  Similarity=0.346  Sum_probs=60.1

Q ss_pred             ceEEEcCCC--CCCCCC-------HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHH--H
Q 048615          465 TAFRIMPPL--PVGFAD-------VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAF--L  533 (634)
Q Consensus       465 t~l~V~~~l--~~~~~~-------~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~--~  533 (634)
                      |.+.+..++  |.++.+       .++|++.|.+||.|.+|.+.....     +......++++|.|.+-.+|++|+  +
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~-----~~~~~~~g~vfV~f~~~e~A~~A~~~l   78 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVD-----GVEVPGCGKIFVEFTSVFDCQKAMQGL   78 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTT-----SSSCTTCCEEEEEESCHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCC-----CCccCCceEEEEEECCHHHHHHHHHHH
Confidence            343333566  444443       367999999999999999875431     112222369999999999999998  4


Q ss_pred             cCCccCCceeEEEEeCC
Q 048615          534 SGKSWQGHDLQFTWLMP  550 (634)
Q Consensus       534 ~g~~~~g~~l~l~W~~~  550 (634)
                      +|+.|.|+.|++.++.+
T Consensus        79 ~Gr~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          79 TGRKFANRVVVTKYCDP   95 (104)
T ss_dssp             SSCCSSSSCCEEEEECH
T ss_pred             CCCEECCeEEEEEEcCH
Confidence            69999999999998753

>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=95.87  E-value=0.0095  Score=46.61  Aligned_cols=57  Identities=23%  Similarity=0.350  Sum_probs=51.0

Q ss_pred             HHHHHhhccCCCEEEEEEecCCC---eEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEeec
Q 048615          192 EALLSHFQKFGEVVDIYIPLNSE---RAFVQFSKREEAEAALKSPDA-VMGNRFIKLWWAN  248 (634)
Q Consensus       192 ~~L~~~FskfG~I~~v~v~~dkg---~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~wak  248 (634)
                      +.|.+.|.++|.|.++.+.+...   .|-|...+..+|..|+..++. .|++++|.|.++.
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHhheeEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            34667899999999999987654   799999999999999999999 8999999999975

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.54  E-value=0.021  Score=46.71  Aligned_cols=53  Identities=25%  Similarity=0.401  Sum_probs=47.7

Q ss_pred             HHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH-cCCccCCceeEEEE
Q 048615          480 VAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL-SGKSWQGHDLQFTW  547 (634)
Q Consensus       480 ~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~-~g~~~~g~~l~l~W  547 (634)
                      ..+|.+-|.+||||.-|++..+               ...|||.+-++|=+|+. +|..+.|+.|+|+-
T Consensus        38 ~~~Llq~l~~~GeViLvRFv~d---------------~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          38 RTELMQTLGSYGTIVLVRINQG---------------QMLVTFADSHSALSVLDVDGMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHHSCCSEEEEETT---------------EEEEECSCSHHHHHHHHGGGSEETTEEEEEEC
T ss_pred             HHHHHHHHhhCCeEEEEEEeCC---------------eEEEEECCcHHHHHHhccCCeEEcceEEEEec
Confidence            4789999999999999999865               49999999999999995 59999999999974

>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=93.40  E-value=0.078  Score=43.40  Aligned_cols=58  Identities=21%  Similarity=0.275  Sum_probs=50.9

Q ss_pred             CEEEEeCCCCCCCCHHHHHHhhccCCCEEEEEEecCC--------CeEEEEeCCHHHHHHHHHcCCC
Q 048615          177 RTLFVNNVPLKSNRREALLSHFQKFGEVVDIYIPLNS--------ERAFVQFSKREEAEAALKSPDA  235 (634)
Q Consensus       177 ~tLfVgnLp~d~~te~~L~~~FskfG~I~~v~v~~dk--------g~AFV~F~s~e~A~~Ai~~lng  235 (634)
                      ++|.|+.||+ +++++++.+.++..|.+........+        ..|||.|.+.++...-.+..+|
T Consensus         2 tKvVvRrLPP-~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g   67 (91)
T d1uw4a_           2 SKVVIRRLPP-TLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDG   67 (91)
T ss_dssp             CEEEEEEECT-TCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTT
T ss_pred             ceEEEecCCC-CCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCC
Confidence            6899999999 59999999999999998877665533        2799999999999999999888

>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=93.30  E-value=0.042  Score=44.95  Aligned_cols=53  Identities=23%  Similarity=0.365  Sum_probs=45.5

Q ss_pred             HHHHHHhhccCCCEEEEEEecCCCeEEEEeCCHHHHHHHHHcCCC-ccCCeEEEEEe
Q 048615          191 REALLSHFQKFGEVVDIYIPLNSERAFVQFSKREEAEAALKSPDA-VMGNRFIKLWW  246 (634)
Q Consensus       191 e~~L~~~FskfG~I~~v~v~~dkg~AFV~F~s~e~A~~Ai~~lng-~l~gR~IkV~w  246 (634)
                      ..+|.+.|..||+|+-||++.+  -.+|+|.+-..|.+|++. +| .+.||.|+|.-
T Consensus        38 ~~~Llq~l~~~GeViLvRFv~d--~mwVTF~dG~SAL~al~l-~g~~v~G~~l~It~   91 (95)
T d1ufwa_          38 RTELMQTLGSYGTIVLVRINQG--QMLVTFADSHSALSVLDV-DGMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHHSCCSEEEEETT--EEEEECSCSHHHHHHHHG-GGSEETTEEEEEEC
T ss_pred             HHHHHHHHhhCCeEEEEEEeCC--eEEEEECCcHHHHHHhcc-CCeEEcceEEEEec
Confidence            3467889999999999998765  689999999999999875 55 89999999974

>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=82.54  E-value=0.55  Score=36.37  Aligned_cols=61  Identities=20%  Similarity=0.102  Sum_probs=47.7

Q ss_pred             ccccccceeeecceeeeeccccccCCCcCceEEEEcCCHHHH-HHHhccCCceeCCEEEEEccCc
Q 048615           87 QNTSMSVWGRIGSSKNRSNVKEKIDATLNSLDYLENETKEDR-EALPSLQGSYRRGKRIIEGDAI  150 (634)
Q Consensus        87 ~~~~~svfg~Ig~V~~~~~~k~k~~~~s~GfgFVeF~~~e~A-~Ai~~mnG~~l~GR~I~V~~a~  150 (634)
                      ...+.+.|.+.+.|..+....-.-.   .-.|-|.-.+..+| -|+..|+...|++++|.|.++.
T Consensus        10 qq~L~~~f~~h~~V~sv~l~~~~dg---~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          10 QQLLQEAFARHGKVKSVELSPHTDY---QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHSCEEEEEECSCCST---TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHhheeEEEEEEEeccCC---cEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            3456778888888777644322211   34799999999999 9999999999999999998775

>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=81.49  E-value=1.6  Score=35.21  Aligned_cols=69  Identities=13%  Similarity=0.134  Sum_probs=55.0

Q ss_pred             ceEEEcCCCCCCCCCHHHHHHHhhcccceeEEEecCCccccCCCCCCCCCCceEEEEecChHHHHHHHH--cCCccCC
Q 048615          465 TAFRIMPPLPVGFADVAVLKEHFSSYGDLASVELEDGEVLEGDNGSDASKNCQVRVSFTTRRSAERAFL--SGKSWQG  540 (634)
Q Consensus       465 t~l~V~~~l~~~~~~~~~L~~hF~~fGei~sv~~~~~~~~~~~~~~~~~~~~~~~V~F~tR~~AE~A~~--~g~~~~g  540 (634)
                      |+|.| --||++++ ++++.+.+...|++..........     ..+++.-+-|.|.|++..+...+..  +|..|-+
T Consensus         2 tKvVv-RrLPP~Lt-e~~F~~~l~~~~~~d~~~f~~Gk~-----s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVI-RRLPPTLT-KEQLQEHLQPMPEHDYFEFFSNDT-----SLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEE-EEECTTCC-HHHHHHHHCSCCCEEEEEEEESCC-----SSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEE-ecCCCCCC-HHHHHHHhCCcCceEEEEEeCCCc-----CCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            56777 68999998 999999999999999988776642     2445555789999999999888764  4888854